FPT and Adehabitat

I am calculating First Passage Time for GPS movements.  The code all runs fine and R recognises that an individual, for example, has 139 relocations.  However when I then view the FPT output there are 295 data points.  I have checked back and the data file, the imported data and  the number of time points all equal 139.  In the help it says that the FPT output is a data frame per individual with a row for each relocation so I cannot understand why it is outputting so many rows.  This happens for many individuals but there doesn't not seem to be any pattern in the number of output rows and occurs if I run individuals separately.  Has anyone ever come across this or have any ideas?

Many Thanks

Sam


Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719


	[[alternative HTML version deleted]]

I am calculating First Passage Time for GPS movements.  The code all runs fine and R recognises that an individual, for example, has 139 relocations.  However when I then view the FPT output there are 295 data points.  I have checked back and the data file, the imported data and  the number of time points all equal 139.  In the help it says that the FPT output is a data frame per individual with a row for each relocation so I cannot understand why it is outputting so many rows.  This happens for many individuals but there doesn't not seem to be any pattern in the number of output rows and occurs if I run individuals separately.  Has anyone ever come across this or have any ideas?

Many Thanks

Sam


Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719


	[[alternative HTML version deleted]]

The data set is pasted at the bottom of the email and this is the code I am using (excluding data read):

ddate <-as.POSIXct(datetime)
burst<-as.factor(FPT[,6])
id<-as.factor(FPT[,6])
xy<-data.frame (FPT[,7], FPT[,8])
yaya<-as.ltraj(xy,ddate,id, burst, typeII = TRUE, slsp = c("remove", "missing"))
summary.ltraj(yaya)
ayayGPS <- redisltraj(yaya, 500) 

fptshort=fpt(ayayGPS, seq(5000,30000, length=6))

I am wondering if the outputs are for the redistributed locations? If this is the case, is there any way to get FPT for raw locations (I want to compare the results with other measures of sinuosity etc.)?  The timing of bursts is not constant though...
  

Many thanks for your help

Best Wishes

Sam 


dddate	tttime	Lat	Lon	ID	Burst	xx	yy
2006-06-21	15:09:48	-5.48138	51.73081	6.2	6.2	742965.87000	5736959.30000
2006-06-21	15:12:01	-5.48146	51.73082	6.2	6.2	742960.28000	5736960.50000
2006-06-21	15:14:58	-5.48583	51.72864	6.2	6.2	742670.66000	5736703.30000
2006-06-21	15:17:24	-5.48699	51.72929	6.2	6.2	742586.76000	5736771.50000
2006-06-21	15:20:30	-5.49569	51.73421	6.2	6.2	741960.22000	5737289.50000
2006-06-21	15:22:43	-5.51323	51.73561	6.2	6.2	740742.05000	5737387.10000
2006-06-21	15:24:56	-5.52846	51.74312	6.2	6.2	739650.90000	5738172.20000
2006-06-21	15:27:18	-5.54604	51.74984	6.2	6.2	738402.38000	5738861.10000
2006-06-21	15:29:36	-5.56479	51.75534	6.2	6.2	737079.38000	5739411.70000
2006-06-21	15:31:55	-5.58231	51.76059	6.2	6.2	735843.10000	5739938.30000
2006-06-21	15:34:31	-5.60271	51.76500	6.2	6.2	734413.21000	5740363.20000
2006-06-21	15:37:07	-5.62265	51.76815	6.2	6.2	733021.53000	5740648.70000
2006-06-21	15:39:26	-5.64052	51.77049	6.2	6.2	731776.44000	5740852.10000
2006-06-21	15:42:20	-5.66318	51.77429	6.2	6.2	730194.48000	5741203.40000
2006-06-21	15:44:42	-5.68139	51.78069	6.2	6.2	728906.38000	5741857.50000
2006-06-21	15:46:55	-5.69897	51.78288	6.2	6.2	727682.52000	5742045.20000
2006-06-21	15:49:13	-5.71702	51.78535	6.2	6.2	726426.04000	5742264.20000
2006-06-21	15:52:13	-5.74030	51.79218	6.2	6.2	724786.32000	5742950.60000
2006-06-21	15:54:37	-5.75805	51.79961	6.2	6.2	723526.28000	5743722.30000
2006-06-21	15:57:25	-5.78056	51.80464	6.2	6.2	721949.58000	5744212.70000
2006-06-21	15:59:37	-5.78381	51.80597	6.2	6.2	721719.39000	5744350.60000
2006-06-21	16:01:48	-5.78273	51.80650	6.2	6.2	721790.85000	5744413.50000
2006-06-21	16:04:06	-5.78262	51.80813	6.2	6.2	721790.77000	5744595.10000
2006-06-21	16:06:19	-5.78165	51.80903	6.2	6.2	721852.86000	5744698.10000
2006-06-21	16:08:31	-5.78108	51.81042	6.2	6.2	721885.22000	5744853.70000
2006-06-21	16:11:07	-5.78012	51.81167	6.2	6.2	721945.56000	5744996.10000
2006-06-21	16:13:31	-5.78455	51.81492	6.2	6.2	721624.44000	5745343.80000
2006-06-21	16:15:42	-5.80296	51.82131	6.2	6.2	720324.79000	5745997.80000
2006-06-21	16:18:00	-5.82177	51.82815	6.2	6.2	718995.58000	5746702.40000
2006-06-21	16:20:25	-5.84190	51.83592	6.2	6.2	717570.85000	5747505.00000
2006-06-21	16:22:42	-5.86282	51.83992	6.2	6.2	716111.21000	5747888.20000
2006-06-21	16:25:02	-5.88449	51.84056	6.2	6.2	714615.50000	5747895.30000
2006-06-21	16:27:25	-5.90739	51.84269	6.2	6.2	713028.46000	5748064.10000
2006-06-21	16:29:37	-5.92828	51.84313	6.2	6.2	711587.50000	5748052.60000
2006-06-21	16:32:01	-5.95060	51.84389	6.2	6.2	710047.08000	5748072.50000
2006-06-21	16:56:55	-6.17119	51.87331	6.2	6.2	694728.69000	5750729.80000
2006-06-21	16:59:07	-6.18950	51.87581	6.2	6.2	693457.32000	5750959.20000
2006-06-21	17:01:18	-6.20822	51.87589	6.2	6.2	692168.53000	5750918.60000
2006-06-21	17:03:31	-6.22717	51.87621	6.2	6.2	690863.23000	5750904.90000
2006-06-21	17:05:57	-6.24819	51.87824	6.2	6.2	689408.33000	5751075.00000
2006-06-21	17:08:06	-6.26652	51.88070	6.2	6.2	688136.15000	5751301.30000
2006-06-21	17:10:24	-6.28705	51.88118	6.2	6.2	686721.86000	5751302.10000
2006-06-21	17:30:53	-6.45187	51.88101	6.2	6.2	675380.21000	5750873.30000
2006-06-21	17:33:01	-6.45097	51.88106	6.2	6.2	675441.74000	5750880.30000
2006-06-21	17:35:12	-6.45016	51.88134	6.2	6.2	675496.73000	5750913.60000
2006-06-21	17:37:36	-6.44931	51.88168	6.2	6.2	675554.00000	5750953.90000
2006-06-21	17:40:01	-6.45036	51.88182	6.2	6.2	675481.09000	5750966.70000
2006-06-21	17:42:25	-6.46744	51.87689	6.2	6.2	674324.60000	5750376.90000
2006-06-21	17:47:04	-6.47118	51.86575	6.2	6.2	674110.57000	5749129.60000
2006-06-21	17:49:42	-6.47089	51.85771	6.2	6.2	674161.22000	5748236.80000
2006-06-21	17:52:00	-6.47270	51.86890	6.2	6.2	673993.44000	5749475.90000
2006-06-21	17:54:15	-6.48392	51.87681	6.2	6.2	673191.15000	5750328.90000
2006-06-21	17:57:24	-6.48532	51.88458	6.2	6.2	673064.58000	5751190.20000
2006-06-21	17:59:38	-6.48502	51.88476	6.2	6.2	673084.53000	5751210.90000
2006-06-21	18:01:48	-6.48431	51.88493	6.2	6.2	673132.65000	5751230.60000
2006-06-21	18:04:00	-6.48373	51.88517	6.2	6.2	673172.08000	5751259.30000
2006-06-21	18:06:37	-6.48307	51.88531	6.2	6.2	673216.72000	5751276.60000
2006-06-21	18:08:48	-6.48249	51.88548	6.2	6.2	673255.87000	5751296.70000
2006-06-21	18:11:37	-6.48168	51.88556	6.2	6.2	673311.19000	5751307.30000
2006-06-21	18:13:48	-6.48085	51.88569	6.2	6.2	673368.13000	5751324.30000
2006-06-21	18:16:36	-6.48000	51.88609	6.2	6.2	673425.07000	5751370.80000
2006-06-21	18:18:48	-6.47963	51.88632	6.2	6.2	673449.43000	5751396.90000
2006-06-21	18:21:37	-6.47898	51.88742	6.2	6.2	673489.80000	5751521.00000
2006-06-21	18:24:42	-6.47843	51.88777	6.2	6.2	673526.54000	5751560.80000
2006-06-21	18:27:44	-6.47785	51.88806	6.2	6.2	673565.54000	5751595.00000
2006-06-21	18:31:54	-6.47595	51.88390	6.2	6.2	673711.97000	5751136.90000
2006-06-21	18:34:13	-6.47883	51.88695	6.2	6.2	673501.81000	5751469.10000
2006-06-21	18:36:43	-6.48925	51.89100	6.2	6.2	672769.77000	5751894.20000
2006-06-21	18:39:07	-6.48853	51.89066	6.2	6.2	672820.50000	5751858.10000
2006-06-21	18:41:24	-6.48806	51.89093	6.2	6.2	672851.47000	5751888.90000
2006-06-21	18:43:43	-6.48760	51.89111	6.2	6.2	672882.66000	5751910.00000
2006-06-21	18:46:14	-6.50280	51.89640	6.2	6.2	671816.44000	5752462.80000
2006-06-21	18:48:24	-6.51535	51.90130	6.2	6.2	670934.59000	5752978.30000
2006-06-21	18:50:43	-6.53180	51.90659	6.2	6.2	669783.44000	5753528.10000
2006-06-21	18:52:54	-6.54770	51.91159	6.2	6.2	668670.70000	5754046.20000
2006-06-21	18:55:07	-6.56365	51.91854	6.2	6.2	667548.36000	5754782.80000
2006-06-21	18:57:43	-6.58125	51.92617	6.2	6.2	666310.08000	5755590.80000
2006-06-21	19:00:19	-6.59594	51.92229	6.2	6.2	665313.97000	5755125.60000
2006-06-21	19:03:32	-6.61737	51.92219	6.2	6.2	663841.38000	5755066.00000
2006-06-21	19:06:07	-6.63860	51.92683	6.2	6.2	662364.38000	5755534.10000
2006-06-21	19:08:50	-6.65449	51.93002	6.2	6.2	661260.75000	5755853.80000
2006-06-21	19:11:00	-6.66988	51.92770	6.2	6.2	660211.40000	5755561.50000
2006-06-21	19:19:55	-6.73595	51.92041	6.2	6.2	655694.34000	5754607.40000
2006-06-21	19:22:07	-6.75289	51.92037	6.2	6.2	654529.67000	5754567.40000
2006-06-21	19:24:18	-6.76489	51.91180	6.2	6.2	653733.38000	5753589.00000
2006-06-21	19:26:49	-6.77896	51.91149	6.2	6.2	652767.36000	5753525.10000
2006-06-21	19:29:00	-6.79281	51.91160	6.2	6.2	651814.25000	5753508.20000
2006-06-21	19:31:49	-6.80859	51.90841	6.2	6.2	650739.36000	5753120.10000
2006-06-21	19:34:13	-6.81951	51.90515	6.2	6.2	649999.50000	5752735.00000
2006-06-21	19:37:31	-6.83476	51.90308	6.2	6.2	648957.17000	5752473.50000
2006-06-21	19:39:55	-6.84750	51.90275	6.2	6.2	648081.77000	5752411.50000
2006-06-21	19:42:22	-6.86246	51.90572	6.2	6.2	647043.59000	5752711.30000
2006-06-21	19:44:32	-6.87491	51.90647	6.2	6.2	646184.81000	5752769.00000
2006-06-21	19:47:01	-6.88648	51.89641	6.2	6.2	645421.25000	5751627.70000
2006-06-21	19:51:26	-6.89770	51.89913	6.2	6.2	644640.49000	5751907.60000
2006-06-21	19:53:36	-6.90755	51.90497	6.2	6.2	643943.96000	5752537.70000
2006-06-21	19:55:50	-6.92119	51.90624	6.2	6.2	643001.95000	5752651.50000
2006-06-21	19:58:00	-6.93272	51.90531	6.2	6.2	642212.04000	5752525.70000
2006-06-21	20:00:14	-6.94620	51.91235	6.2	6.2	641262.59000	5753283.00000
2006-06-21	20:02:31	-6.95391	51.92287	6.2	6.2	640699.10000	5754437.90000
2006-06-21	20:04:55	-6.96821	51.92892	6.2	6.2	639697.30000	5755083.10000
2006-06-21	20:07:07	-6.98130	51.93282	6.2	6.2	638785.69000	5755491.50000
2006-06-21	20:09:19	-6.99558	51.93392	6.2	6.2	637800.23000	5755586.10000
2006-06-21	20:11:30	-7.00972	51.93806	6.2	6.2	636815.72000	5756020.60000
2006-06-21	20:13:43	-7.02412	51.94170	6.2	6.2	635814.93000	5756398.40000
2006-06-21	20:15:56	-7.03805	51.94504	6.2	6.2	634847.64000	5756743.40000
2006-06-21	20:18:19	-7.05357	51.94017	6.2	6.2	633795.50000	5756173.70000
2006-06-21	20:20:49	-7.07035	51.93468	6.2	6.2	632658.47000	5755532.50000
2006-06-21	20:23:19	-7.08226	51.93128	6.2	6.2	631849.87000	5755132.10000
2006-06-21	20:25:31	-7.09397	51.93145	6.2	6.2	631044.01000	5755129.70000
2006-06-21	20:27:49	-7.10594	51.93418	6.2	6.2	630213.31000	5755412.60000
2006-06-21	20:30:07	-7.11838	51.93647	6.2	6.2	629351.69000	5755644.60000
2006-06-21	20:32:20	-7.13231	51.93359	6.2	6.2	628402.16000	5755299.60000
2006-06-21	20:34:43	-7.14559	51.92439	6.2	6.2	627515.21000	5754252.80000
2006-06-21	20:37:01	-7.15992	51.91804	6.2	6.2	626547.66000	5753521.60000
2006-06-21	20:39:20	-7.17634	51.91853	6.2	6.2	625417.35000	5753548.20000
2006-06-21	20:41:30	-7.19056	51.91872	6.2	6.2	624438.97000	5753544.40000
2006-06-21	20:43:49	-7.20412	51.91658	6.2	6.2	623512.48000	5753283.70000
2006-06-21	20:46:07	-7.21879	51.91735	6.2	6.2	622501.41000	5753344.50000
2006-06-21	20:48:19	-7.23236	51.91628	6.2	6.2	621571.44000	5753203.20000
2006-06-21	20:50:37	-7.24680	51.91654	6.2	6.2	620577.46000	5753208.20000
2006-06-21	20:52:48	-7.26108	51.91442	6.2	6.2	619601.28000	5752948.50000
2006-06-21	20:55:01	-7.27334	51.91375	6.2	6.2	618759.89000	5752853.70000
2006-06-21	20:57:14	-7.28510	51.91937	6.2	6.2	617936.13000	5753459.80000
2006-06-21	20:59:25	-7.29653	51.92360	6.2	6.2	617138.78000	5753911.50000
2006-06-21	21:01:36	-7.30587	51.92531	6.2	6.2	616492.58000	5754087.30000
2006-06-21	21:03:56	-7.32102	51.92161	6.2	6.2	615459.95000	5753651.10000
2006-06-21	21:06:06	-7.33423	51.92266	6.2	6.2	614549.49000	5753746.70000
2006-06-21	21:08:18	-7.34527	51.92961	6.2	6.2	613772.55000	5754502.50000
2006-06-21	21:10:37	-7.36041	51.93295	6.2	6.2	612723.16000	5754850.90000
2006-06-21	21:16:36	-7.40056	51.94133	6.2	6.2	609942.27000	5755721.40000
2006-06-21	21:18:49	-7.40028	51.94125	6.2	6.2	609962.29000	5755712.40000
2006-06-21	21:21:01	-7.40044	51.94117	6.2	6.2	609951.37000	5755703.60000
2006-06-21	21:23:25	-7.40046	51.94107	6.2	6.2	609949.79000	5755692.10000
2006-06-21	21:25:37	-7.40008	51.94118	6.2	6.2	609976.09000	5755705.00000
2006-06-21	21:27:55	-7.40016	51.94100	6.2	6.2	609971.02000	5755685.30000
2006-06-21	21:31:25	-7.40075	51.94086	6.2	6.2	609930.70000	5755669.00000
2006-06-21	21:34:33	-7.40036	51.94086	6.2	6.2	609957.63000	5755668.90000
2006-06-21	21:37:55	-7.40036	51.94075	6.2	6.2	609957.56000	5755656.40000
		
Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth 
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719

-----Original Message-----
From: Cl?ment Calenge [mailto:clement.calenge at oncfs.gouv.fr] 
Sent: 21 April 2010 11:18
To: Samantha Patrick
Cc: r-sig-ecology at r-project.org
Subject: Re: [R-sig-eco] FPT and Adehabitat

Hard to say without any reproducible example... could you post an 
example (minimum dataset + R code)?
Best regards,

Cl?ment Calenge

Samantha Patrick wrote:
  

I am calculating First Passage Time for GPS movements.  The code all runs fine and R recognises that an individual, for example, has 139 relocations.  However when I then view the FPT output there are 295 data points.  I have checked back and the data file, the imported data and  the number of time points all equal 139.  In the help it says that the FPT output is a data frame per individual with a row for each relocation so I cannot understand why it is outputting so many rows.  This happens for many individuals but there doesn't not seem to be any pattern in the number of output rows and occurs if I run individuals separately.  Has anyone ever come across this or have any ideas?

Many Thanks

Sam


Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719


	[[alternative HTML version deleted]]

The data set is pasted at the bottom of the email and this is the code I am using (excluding data read):

ddate <-as.POSIXct(datetime)
burst<-as.factor(FPT[,6])
id<-as.factor(FPT[,6])
xy<-data.frame (FPT[,7], FPT[,8])
yaya<-as.ltraj(xy,ddate,id, burst, typeII = TRUE, slsp = c("remove", "missing"))
summary.ltraj(yaya)
ayayGPS <- redisltraj(yaya, 500)

fptshort=fpt(ayayGPS, seq(5000,30000, length=6))

I am wondering if the outputs are for the redistributed locations? If this is the case, is there any way to get FPT for raw locations (I want to compare the results with other measures of sinuosity etc.)?  The timing of bursts is not constant though...

Many thanks for your help

Best Wishes

Sam


dddate        tttime  Lat     Lon     ID      Burst   xx      yy
2006-06-21    15:09:48        -5.48138        51.73081        6.2     6.2     742965.87000    5736959.30000
2006-06-21    15:12:01        -5.48146        51.73082        6.2     6.2     742960.28000    5736960.50000
2006-06-21    15:14:58        -5.48583        51.72864        6.2     6.2     742670.66000    5736703.30000
2006-06-21    15:17:24        -5.48699        51.72929        6.2     6.2     742586.76000    5736771.50000
2006-06-21    15:20:30        -5.49569        51.73421        6.2     6.2     741960.22000    5737289.50000
2006-06-21    15:22:43        -5.51323        51.73561        6.2     6.2     740742.05000    5737387.10000
2006-06-21    15:24:56        -5.52846        51.74312        6.2     6.2     739650.90000    5738172.20000
2006-06-21    15:27:18        -5.54604        51.74984        6.2     6.2     738402.38000    5738861.10000
2006-06-21    15:29:36        -5.56479        51.75534        6.2     6.2     737079.38000    5739411.70000
2006-06-21    15:31:55        -5.58231        51.76059        6.2     6.2     735843.10000    5739938.30000
2006-06-21    15:34:31        -5.60271        51.76500        6.2     6.2     734413.21000    5740363.20000
2006-06-21    15:37:07        -5.62265        51.76815        6.2     6.2     733021.53000    5740648.70000
2006-06-21    15:39:26        -5.64052        51.77049        6.2     6.2     731776.44000    5740852.10000
2006-06-21    15:42:20        -5.66318        51.77429        6.2     6.2     730194.48000    5741203.40000
2006-06-21    15:44:42        -5.68139        51.78069        6.2     6.2     728906.38000    5741857.50000
2006-06-21    15:46:55        -5.69897        51.78288        6.2     6.2     727682.52000    5742045.20000
2006-06-21    15:49:13        -5.71702        51.78535        6.2     6.2     726426.04000    5742264.20000
2006-06-21    15:52:13        -5.74030        51.79218        6.2     6.2     724786.32000    5742950.60000
2006-06-21    15:54:37        -5.75805        51.79961        6.2     6.2     723526.28000    5743722.30000
2006-06-21    15:57:25        -5.78056        51.80464        6.2     6.2     721949.58000    5744212.70000
2006-06-21    15:59:37        -5.78381        51.80597        6.2     6.2     721719.39000    5744350.60000
2006-06-21    16:01:48        -5.78273        51.80650        6.2     6.2     721790.85000    5744413.50000
2006-06-21    16:04:06        -5.78262        51.80813        6.2     6.2     721790.77000    5744595.10000
2006-06-21    16:06:19        -5.78165        51.80903        6.2     6.2     721852.86000    5744698.10000
2006-06-21    16:08:31        -5.78108        51.81042        6.2     6.2     721885.22000    5744853.70000
2006-06-21    16:11:07        -5.78012        51.81167        6.2     6.2     721945.56000    5744996.10000
2006-06-21    16:13:31        -5.78455        51.81492        6.2     6.2     721624.44000    5745343.80000
2006-06-21    16:15:42        -5.80296        51.82131        6.2     6.2     720324.79000    5745997.80000
2006-06-21    16:18:00        -5.82177        51.82815        6.2     6.2     718995.58000    5746702.40000
2006-06-21    16:20:25        -5.84190        51.83592        6.2     6.2     717570.85000    5747505.00000
2006-06-21    16:22:42        -5.86282        51.83992        6.2     6.2     716111.21000    5747888.20000
2006-06-21    16:25:02        -5.88449        51.84056        6.2     6.2     714615.50000    5747895.30000
2006-06-21    16:27:25        -5.90739        51.84269        6.2     6.2     713028.46000    5748064.10000
2006-06-21    16:29:37        -5.92828        51.84313        6.2     6.2     711587.50000    5748052.60000
2006-06-21    16:32:01        -5.95060        51.84389        6.2     6.2     710047.08000    5748072.50000
2006-06-21    16:56:55        -6.17119        51.87331        6.2     6.2     694728.69000    5750729.80000
2006-06-21    16:59:07        -6.18950        51.87581        6.2     6.2     693457.32000    5750959.20000
2006-06-21    17:01:18        -6.20822        51.87589        6.2     6.2     692168.53000    5750918.60000
2006-06-21    17:03:31        -6.22717        51.87621        6.2     6.2     690863.23000    5750904.90000
2006-06-21    17:05:57        -6.24819        51.87824        6.2     6.2     689408.33000    5751075.00000
2006-06-21    17:08:06        -6.26652        51.88070        6.2     6.2     688136.15000    5751301.30000
2006-06-21    17:10:24        -6.28705        51.88118        6.2     6.2     686721.86000    5751302.10000
2006-06-21    17:30:53        -6.45187        51.88101        6.2     6.2     675380.21000    5750873.30000
2006-06-21    17:33:01        -6.45097        51.88106        6.2     6.2     675441.74000    5750880.30000
2006-06-21    17:35:12        -6.45016        51.88134        6.2     6.2     675496.73000    5750913.60000
2006-06-21    17:37:36        -6.44931        51.88168        6.2     6.2     675554.00000    5750953.90000
2006-06-21    17:40:01        -6.45036        51.88182        6.2     6.2     675481.09000    5750966.70000
2006-06-21    17:42:25        -6.46744        51.87689        6.2     6.2     674324.60000    5750376.90000
2006-06-21    17:47:04        -6.47118        51.86575        6.2     6.2     674110.57000    5749129.60000
2006-06-21    17:49:42        -6.47089        51.85771        6.2     6.2     674161.22000    5748236.80000
2006-06-21    17:52:00        -6.47270        51.86890        6.2     6.2     673993.44000    5749475.90000
2006-06-21    17:54:15        -6.48392        51.87681        6.2     6.2     673191.15000    5750328.90000
2006-06-21    17:57:24        -6.48532        51.88458        6.2     6.2     673064.58000    5751190.20000
2006-06-21    17:59:38        -6.48502        51.88476        6.2     6.2     673084.53000    5751210.90000
2006-06-21    18:01:48        -6.48431        51.88493        6.2     6.2     673132.65000    5751230.60000
2006-06-21    18:04:00        -6.48373        51.88517        6.2     6.2     673172.08000    5751259.30000
2006-06-21    18:06:37        -6.48307        51.88531        6.2     6.2     673216.72000    5751276.60000
2006-06-21    18:08:48        -6.48249        51.88548        6.2     6.2     673255.87000    5751296.70000
2006-06-21    18:11:37        -6.48168        51.88556        6.2     6.2     673311.19000    5751307.30000
2006-06-21    18:13:48        -6.48085        51.88569        6.2     6.2     673368.13000    5751324.30000
2006-06-21    18:16:36        -6.48000        51.88609        6.2     6.2     673425.07000    5751370.80000
2006-06-21    18:18:48        -6.47963        51.88632        6.2     6.2     673449.43000    5751396.90000
2006-06-21    18:21:37        -6.47898        51.88742        6.2     6.2     673489.80000    5751521.00000
2006-06-21    18:24:42        -6.47843        51.88777        6.2     6.2     673526.54000    5751560.80000
2006-06-21    18:27:44        -6.47785        51.88806        6.2     6.2     673565.54000    5751595.00000
2006-06-21    18:31:54        -6.47595        51.88390        6.2     6.2     673711.97000    5751136.90000
2006-06-21    18:34:13        -6.47883        51.88695        6.2     6.2     673501.81000    5751469.10000
2006-06-21    18:36:43        -6.48925        51.89100        6.2     6.2     672769.77000    5751894.20000
2006-06-21    18:39:07        -6.48853        51.89066        6.2     6.2     672820.50000    5751858.10000
2006-06-21    18:41:24        -6.48806        51.89093        6.2     6.2     672851.47000    5751888.90000
2006-06-21    18:43:43        -6.48760        51.89111        6.2     6.2     672882.66000    5751910.00000
2006-06-21    18:46:14        -6.50280        51.89640        6.2     6.2     671816.44000    5752462.80000
2006-06-21    18:48:24        -6.51535        51.90130        6.2     6.2     670934.59000    5752978.30000
2006-06-21    18:50:43        -6.53180        51.90659        6.2     6.2     669783.44000    5753528.10000
2006-06-21    18:52:54        -6.54770        51.91159        6.2     6.2     668670.70000    5754046.20000
2006-06-21    18:55:07        -6.56365        51.91854        6.2     6.2     667548.36000    5754782.80000
2006-06-21    18:57:43        -6.58125        51.92617        6.2     6.2     666310.08000    5755590.80000
2006-06-21    19:00:19        -6.59594        51.92229        6.2     6.2     665313.97000    5755125.60000
2006-06-21    19:03:32        -6.61737        51.92219        6.2     6.2     663841.38000    5755066.00000
2006-06-21    19:06:07        -6.63860        51.92683        6.2     6.2     662364.38000    5755534.10000
2006-06-21    19:08:50        -6.65449        51.93002        6.2     6.2     661260.75000    5755853.80000
2006-06-21    19:11:00        -6.66988        51.92770        6.2     6.2     660211.40000    5755561.50000
2006-06-21    19:19:55        -6.73595        51.92041        6.2     6.2     655694.34000    5754607.40000
2006-06-21    19:22:07        -6.75289        51.92037        6.2     6.2     654529.67000    5754567.40000
2006-06-21    19:24:18        -6.76489        51.91180        6.2     6.2     653733.38000    5753589.00000
2006-06-21    19:26:49        -6.77896        51.91149        6.2     6.2     652767.36000    5753525.10000
2006-06-21    19:29:00        -6.79281        51.91160        6.2     6.2     651814.25000    5753508.20000
2006-06-21    19:31:49        -6.80859        51.90841        6.2     6.2     650739.36000    5753120.10000
2006-06-21    19:34:13        -6.81951        51.90515        6.2     6.2     649999.50000    5752735.00000
2006-06-21    19:37:31        -6.83476        51.90308        6.2     6.2     648957.17000    5752473.50000
2006-06-21    19:39:55        -6.84750        51.90275        6.2     6.2     648081.77000    5752411.50000
2006-06-21    19:42:22        -6.86246        51.90572        6.2     6.2     647043.59000    5752711.30000
2006-06-21    19:44:32        -6.87491        51.90647        6.2     6.2     646184.81000    5752769.00000
2006-06-21    19:47:01        -6.88648        51.89641        6.2     6.2     645421.25000    5751627.70000
2006-06-21    19:51:26        -6.89770        51.89913        6.2     6.2     644640.49000    5751907.60000
2006-06-21    19:53:36        -6.90755        51.90497        6.2     6.2     643943.96000    5752537.70000
2006-06-21    19:55:50        -6.92119        51.90624        6.2     6.2     643001.95000    5752651.50000
2006-06-21    19:58:00        -6.93272        51.90531        6.2     6.2     642212.04000    5752525.70000
2006-06-21    20:00:14        -6.94620        51.91235        6.2     6.2     641262.59000    5753283.00000
2006-06-21    20:02:31        -6.95391        51.92287        6.2     6.2     640699.10000    5754437.90000
2006-06-21    20:04:55        -6.96821        51.92892        6.2     6.2     639697.30000    5755083.10000
2006-06-21    20:07:07        -6.98130        51.93282        6.2     6.2     638785.69000    5755491.50000
2006-06-21    20:09:19        -6.99558        51.93392        6.2     6.2     637800.23000    5755586.10000
2006-06-21    20:11:30        -7.00972        51.93806        6.2     6.2     636815.72000    5756020.60000
2006-06-21    20:13:43        -7.02412        51.94170        6.2     6.2     635814.93000    5756398.40000
2006-06-21    20:15:56        -7.03805        51.94504        6.2     6.2     634847.64000    5756743.40000
2006-06-21    20:18:19        -7.05357        51.94017        6.2     6.2     633795.50000    5756173.70000
2006-06-21    20:20:49        -7.07035        51.93468        6.2     6.2     632658.47000    5755532.50000
2006-06-21    20:23:19        -7.08226        51.93128        6.2     6.2     631849.87000    5755132.10000
2006-06-21    20:25:31        -7.09397        51.93145        6.2     6.2     631044.01000    5755129.70000
2006-06-21    20:27:49        -7.10594        51.93418        6.2     6.2     630213.31000    5755412.60000
2006-06-21    20:30:07        -7.11838        51.93647        6.2     6.2     629351.69000    5755644.60000
2006-06-21    20:32:20        -7.13231        51.93359        6.2     6.2     628402.16000    5755299.60000
2006-06-21    20:34:43        -7.14559        51.92439        6.2     6.2     627515.21000    5754252.80000
2006-06-21    20:37:01        -7.15992        51.91804        6.2     6.2     626547.66000    5753521.60000
2006-06-21    20:39:20        -7.17634        51.91853        6.2     6.2     625417.35000    5753548.20000
2006-06-21    20:41:30        -7.19056        51.91872        6.2     6.2     624438.97000    5753544.40000
2006-06-21    20:43:49        -7.20412        51.91658        6.2     6.2     623512.48000    5753283.70000
2006-06-21    20:46:07        -7.21879        51.91735        6.2     6.2     622501.41000    5753344.50000
2006-06-21    20:48:19        -7.23236        51.91628        6.2     6.2     621571.44000    5753203.20000
2006-06-21    20:50:37        -7.24680        51.91654        6.2     6.2     620577.46000    5753208.20000
2006-06-21    20:52:48        -7.26108        51.91442        6.2     6.2     619601.28000    5752948.50000
2006-06-21    20:55:01        -7.27334        51.91375        6.2     6.2     618759.89000    5752853.70000
2006-06-21    20:57:14        -7.28510        51.91937        6.2     6.2     617936.13000    5753459.80000
2006-06-21    20:59:25        -7.29653        51.92360        6.2     6.2     617138.78000    5753911.50000
2006-06-21    21:01:36        -7.30587        51.92531        6.2     6.2     616492.58000    5754087.30000
2006-06-21    21:03:56        -7.32102        51.92161        6.2     6.2     615459.95000    5753651.10000
2006-06-21    21:06:06        -7.33423        51.92266        6.2     6.2     614549.49000    5753746.70000
2006-06-21    21:08:18        -7.34527        51.92961        6.2     6.2     613772.55000    5754502.50000
2006-06-21    21:10:37        -7.36041        51.93295        6.2     6.2     612723.16000    5754850.90000
2006-06-21    21:16:36        -7.40056        51.94133        6.2     6.2     609942.27000    5755721.40000
2006-06-21    21:18:49        -7.40028        51.94125        6.2     6.2     609962.29000    5755712.40000
2006-06-21    21:21:01        -7.40044        51.94117        6.2     6.2     609951.37000    5755703.60000
2006-06-21    21:23:25        -7.40046        51.94107        6.2     6.2     609949.79000    5755692.10000
2006-06-21    21:25:37        -7.40008        51.94118        6.2     6.2     609976.09000    5755705.00000
2006-06-21    21:27:55        -7.40016        51.94100        6.2     6.2     609971.02000    5755685.30000
2006-06-21    21:31:25        -7.40075        51.94086        6.2     6.2     609930.70000    5755669.00000
2006-06-21    21:34:33        -7.40036        51.94086        6.2     6.2     609957.63000    5755668.90000
2006-06-21    21:37:55        -7.40036        51.94075        6.2     6.2     609957.56000    5755656.40000

Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719

-----Original Message-----
From: Cl?ment Calenge [mailto:clement.calenge at oncfs.gouv.fr]
Sent: 21 April 2010 11:18
To: Samantha Patrick
Cc: r-sig-ecology at r-project.org
Subject: Re: [R-sig-eco] FPT and Adehabitat

Hard to say without any reproducible example... could you post an
example (minimum dataset + R code)?
Best regards,

Cl?ment Calenge

Samantha Patrick wrote:

I am calculating First Passage Time for GPS movements.  The code all runs fine and R recognises that an individual, for example, has 139 relocations.  However when I then view the FPT output there are 295 data points.  I have checked back and the data file, the imported data and  the number of time points all equal 139.  In the help it says that the FPT output is a data frame per individual with a row for each relocation so I cannot understand why it is outputting so many rows.  This happens for many individuals but there doesn't not seem to be any pattern in the number of output rows and occurs if I run individuals separately.  Has anyone ever come across this or have any ideas?

Many Thanks

Sam


Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719


     [[alternative HTML version deleted]]

Thank you so much - you have been a huge help.  I have followed you recommendation and now I have my trajectories sampled at an equal time period and the missing values entered as NAs.  To continue with my analysis I have been trying to find a way to output the object of class ltraj (in this case yaya3) so I can see where R has placed the NAs and the corresponding co-ordinates of points with FP values (to allow spatial analysis).  However I can only find a function to plot the positions of NAs  - the final hurdle!
  

Many Thanks again

Sam


Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719


-----Original Message-----
From: Cl?ment Calenge [mailto:clement.calenge at oncfs.gouv.fr]
Sent: 21 April 2010 12:12
To: Samantha Patrick
Cc: r-sig-ecology at r-project.org
Subject: Re: [R-sig-eco] FPT and Adehabitat

Samantha Patrick wrote:
  

The data set is pasted at the bottom of the email and this is the code I am using (excluding data read):

ddate <-as.POSIXct(datetime)
burst<-as.factor(FPT[,6])
id<-as.factor(FPT[,6])
xy<-data.frame (FPT[,7], FPT[,8])
yaya<-as.ltraj(xy,ddate,id, burst, typeII = TRUE, slsp = c("remove", "missing"))
summary.ltraj(yaya)
ayayGPS <- redisltraj(yaya, 500)

fptshort=fpt(ayayGPS, seq(5000,30000, length=6))

I am wondering if the outputs are for the redistributed locations? If this is the case, is there any way to get FPT for raw locations (I want to compare the results with other measures of sinuosity etc.)?  The timing of bursts is not constant though...

    

Actually, when you use redisltraj, you redicretize your trajectory so
that the step length is constant (you fix it to 500 metres). Your
original dataset has 139 relocations, but when you rediscretize the
trajectory, you increase the number of relocations. Indeed, have a look
at the contents of ayayGPS:

 > ayayGPS

*********** List of class ltraj ***********

Type of the traject: Type II (time recorded)
Irregular traject. Variable time lag between two locs

Characteristics of the bursts:
   id    burst nb.reloc NAs          date.begin            date.end
1 6.2 6.2.R500      295   0 2006-06-21 15:09:48 2006-06-21 21:16:01

There are 295 relocations in your new trajectory. This explains why the
fpt returns a data frame with 295 data points. Now the question is: why
do you rediscretize the trajectory? You note that "The timing of bursts
is not constant". This is expected: the function redisltraj does not
transform an irregular trajectory into a regular one (the help page of
this function indicates that it is used for "Rediscretization of a
Trajectory With Regular Step Length").

Looking at the time lag between successive relocations:

plotltr(yaya,"dt/60")

it appears that a relocation was collected approximately every 2 min...
and that there are missing values. Two points are important here:

* there should be missing values in the trajectory at several places.
Therefore the function setNA may be useful here to fill in these NAs
(have a look at the help page of the function setNA):

yaya2 <- setNA(yaya, as.POSIXct("2010-01-01"), 2, units="min")

have a look at yaya2:

 > yaya2

*********** List of class ltraj ***********

Type of the traject: Type II (time recorded)
Irregular traject. Variable time lag between two locs

Characteristics of the bursts:
   id burst nb.reloc NAs          date.begin            date.end
1 6.2   6.2      195  56 2006-06-21 15:09:48 2006-06-21 21:37:55

The number of relocations have increased (there are now 195 relocations,
because 56 are missing)

* the timings are only approximate. We can "round" the timing to make
the trajectory exactly regular (see the help page of sett0):

yaya3 <- sett0(yaya2, as.POSIXct("2010-01-01"), 2, units="min")

yaya3 is now exactly regular:

 > yaya3

*********** List of class ltraj ***********

Type of the traject: Type II (time recorded)
Regular traject. Time lag between two locs: 120 seconds

Characteristics of the bursts:
   id burst nb.reloc NAs          date.begin            date.end
1 6.2   6.2      195  56 2006-06-21 15:10:00 2006-06-21 21:38:00

the time lag between relocations is now constant. This dataset yaya3
contains only the original relocations (with rounded timings) + missing
values.
 **But note that the step length is no longer constant** (but why do you
need constant step length in FPT analysis?). Finally use the function fpt:

fptshort <- fpt(yaya3, seq(5000,30000, length=6))

Hope this helps

Cl?ment Calenge.

  

Many thanks for your help

Best Wishes

Sam


dddate        tttime  Lat     Lon     ID      Burst   xx      yy
2006-06-21    15:09:48        -5.48138        51.73081        6.2     6.2     742965.87000    5736959.30000
2006-06-21    15:12:01        -5.48146        51.73082        6.2     6.2     742960.28000    5736960.50000
2006-06-21    15:14:58        -5.48583        51.72864        6.2     6.2     742670.66000    5736703.30000
2006-06-21    15:17:24        -5.48699        51.72929        6.2     6.2     742586.76000    5736771.50000
2006-06-21    15:20:30        -5.49569        51.73421        6.2     6.2     741960.22000    5737289.50000
2006-06-21    15:22:43        -5.51323        51.73561        6.2     6.2     740742.05000    5737387.10000
2006-06-21    15:24:56        -5.52846        51.74312        6.2     6.2     739650.90000    5738172.20000
2006-06-21    15:27:18        -5.54604        51.74984        6.2     6.2     738402.38000    5738861.10000
2006-06-21    15:29:36        -5.56479        51.75534        6.2     6.2     737079.38000    5739411.70000
2006-06-21    15:31:55        -5.58231        51.76059        6.2     6.2     735843.10000    5739938.30000
2006-06-21    15:34:31        -5.60271        51.76500        6.2     6.2     734413.21000    5740363.20000
2006-06-21    15:37:07        -5.62265        51.76815        6.2     6.2     733021.53000    5740648.70000
2006-06-21    15:39:26        -5.64052        51.77049        6.2     6.2     731776.44000    5740852.10000
2006-06-21    15:42:20        -5.66318        51.77429        6.2     6.2     730194.48000    5741203.40000
2006-06-21    15:44:42        -5.68139        51.78069        6.2     6.2     728906.38000    5741857.50000
2006-06-21    15:46:55        -5.69897        51.78288        6.2     6.2     727682.52000    5742045.20000
2006-06-21    15:49:13        -5.71702        51.78535        6.2     6.2     726426.04000    5742264.20000
2006-06-21    15:52:13        -5.74030        51.79218        6.2     6.2     724786.32000    5742950.60000
2006-06-21    15:54:37        -5.75805        51.79961        6.2     6.2     723526.28000    5743722.30000
2006-06-21    15:57:25        -5.78056        51.80464        6.2     6.2     721949.58000    5744212.70000
2006-06-21    15:59:37        -5.78381        51.80597        6.2     6.2     721719.39000    5744350.60000
2006-06-21    16:01:48        -5.78273        51.80650        6.2     6.2     721790.85000    5744413.50000
2006-06-21    16:04:06        -5.78262        51.80813        6.2     6.2     721790.77000    5744595.10000
2006-06-21    16:06:19        -5.78165        51.80903        6.2     6.2     721852.86000    5744698.10000
2006-06-21    16:08:31        -5.78108        51.81042        6.2     6.2     721885.22000    5744853.70000
2006-06-21    16:11:07        -5.78012        51.81167        6.2     6.2     721945.56000    5744996.10000
2006-06-21    16:13:31        -5.78455        51.81492        6.2     6.2     721624.44000    5745343.80000
2006-06-21    16:15:42        -5.80296        51.82131        6.2     6.2     720324.79000    5745997.80000
2006-06-21    16:18:00        -5.82177        51.82815        6.2     6.2     718995.58000    5746702.40000
2006-06-21    16:20:25        -5.84190        51.83592        6.2     6.2     717570.85000    5747505.00000
2006-06-21    16:22:42        -5.86282        51.83992        6.2     6.2     716111.21000    5747888.20000
2006-06-21    16:25:02        -5.88449        51.84056        6.2     6.2     714615.50000    5747895.30000
2006-06-21    16:27:25        -5.90739        51.84269        6.2     6.2     713028.46000    5748064.10000
2006-06-21    16:29:37        -5.92828        51.84313        6.2     6.2     711587.50000    5748052.60000
2006-06-21    16:32:01        -5.95060        51.84389        6.2     6.2     710047.08000    5748072.50000
2006-06-21    16:56:55        -6.17119        51.87331        6.2     6.2     694728.69000    5750729.80000
2006-06-21    16:59:07        -6.18950        51.87581        6.2     6.2     693457.32000    5750959.20000
2006-06-21    17:01:18        -6.20822        51.87589        6.2     6.2     692168.53000    5750918.60000
2006-06-21    17:03:31        -6.22717        51.87621        6.2     6.2     690863.23000    5750904.90000
2006-06-21    17:05:57        -6.24819        51.87824        6.2     6.2     689408.33000    5751075.00000
2006-06-21    17:08:06        -6.26652        51.88070        6.2     6.2     688136.15000    5751301.30000
2006-06-21    17:10:24        -6.28705        51.88118        6.2     6.2     686721.86000    5751302.10000
2006-06-21    17:30:53        -6.45187        51.88101        6.2     6.2     675380.21000    5750873.30000
2006-06-21    17:33:01        -6.45097        51.88106        6.2     6.2     675441.74000    5750880.30000
2006-06-21    17:35:12        -6.45016        51.88134        6.2     6.2     675496.73000    5750913.60000
2006-06-21    17:37:36        -6.44931        51.88168        6.2     6.2     675554.00000    5750953.90000
2006-06-21    17:40:01        -6.45036        51.88182        6.2     6.2     675481.09000    5750966.70000
2006-06-21    17:42:25        -6.46744        51.87689        6.2     6.2     674324.60000    5750376.90000
2006-06-21    17:47:04        -6.47118        51.86575        6.2     6.2     674110.57000    5749129.60000
2006-06-21    17:49:42        -6.47089        51.85771        6.2     6.2     674161.22000    5748236.80000
2006-06-21    17:52:00        -6.47270        51.86890        6.2     6.2     673993.44000    5749475.90000
2006-06-21    17:54:15        -6.48392        51.87681        6.2     6.2     673191.15000    5750328.90000
2006-06-21    17:57:24        -6.48532        51.88458        6.2     6.2     673064.58000    5751190.20000
2006-06-21    17:59:38        -6.48502        51.88476        6.2     6.2     673084.53000    5751210.90000
2006-06-21    18:01:48        -6.48431        51.88493        6.2     6.2     673132.65000    5751230.60000
2006-06-21    18:04:00        -6.48373        51.88517        6.2     6.2     673172.08000    5751259.30000
2006-06-21    18:06:37        -6.48307        51.88531        6.2     6.2     673216.72000    5751276.60000
2006-06-21    18:08:48        -6.48249        51.88548        6.2     6.2     673255.87000    5751296.70000
2006-06-21    18:11:37        -6.48168        51.88556        6.2     6.2     673311.19000    5751307.30000
2006-06-21    18:13:48        -6.48085        51.88569        6.2     6.2     673368.13000    5751324.30000
2006-06-21    18:16:36        -6.48000        51.88609        6.2     6.2     673425.07000    5751370.80000
2006-06-21    18:18:48        -6.47963        51.88632        6.2     6.2     673449.43000    5751396.90000
2006-06-21    18:21:37        -6.47898        51.88742        6.2     6.2     673489.80000    5751521.00000
2006-06-21    18:24:42        -6.47843        51.88777        6.2     6.2     673526.54000    5751560.80000
2006-06-21    18:27:44        -6.47785        51.88806        6.2     6.2     673565.54000    5751595.00000
2006-06-21    18:31:54        -6.47595        51.88390        6.2     6.2     673711.97000    5751136.90000
2006-06-21    18:34:13        -6.47883        51.88695        6.2     6.2     673501.81000    5751469.10000
2006-06-21    18:36:43        -6.48925        51.89100        6.2     6.2     672769.77000    5751894.20000
2006-06-21    18:39:07        -6.48853        51.89066        6.2     6.2     672820.50000    5751858.10000
2006-06-21    18:41:24        -6.48806        51.89093        6.2     6.2     672851.47000    5751888.90000
2006-06-21    18:43:43        -6.48760        51.89111        6.2     6.2     672882.66000    5751910.00000
2006-06-21    18:46:14        -6.50280        51.89640        6.2     6.2     671816.44000    5752462.80000
2006-06-21    18:48:24        -6.51535        51.90130        6.2     6.2     670934.59000    5752978.30000
2006-06-21    18:50:43        -6.53180        51.90659        6.2     6.2     669783.44000    5753528.10000
2006-06-21    18:52:54        -6.54770        51.91159        6.2     6.2     668670.70000    5754046.20000
2006-06-21    18:55:07        -6.56365        51.91854        6.2     6.2     667548.36000    5754782.80000
2006-06-21    18:57:43        -6.58125        51.92617        6.2     6.2     666310.08000    5755590.80000
2006-06-21    19:00:19        -6.59594        51.92229        6.2     6.2     665313.97000    5755125.60000
2006-06-21    19:03:32        -6.61737        51.92219        6.2     6.2     663841.38000    5755066.00000
2006-06-21    19:06:07        -6.63860        51.92683        6.2     6.2     662364.38000    5755534.10000
2006-06-21    19:08:50        -6.65449        51.93002        6.2     6.2     661260.75000    5755853.80000
2006-06-21    19:11:00        -6.66988        51.92770        6.2     6.2     660211.40000    5755561.50000
2006-06-21    19:19:55        -6.73595        51.92041        6.2     6.2     655694.34000    5754607.40000
2006-06-21    19:22:07        -6.75289        51.92037        6.2     6.2     654529.67000    5754567.40000
2006-06-21    19:24:18        -6.76489        51.91180        6.2     6.2     653733.38000    5753589.00000
2006-06-21    19:26:49        -6.77896        51.91149        6.2     6.2     652767.36000    5753525.10000
2006-06-21    19:29:00        -6.79281        51.91160        6.2     6.2     651814.25000    5753508.20000
2006-06-21    19:31:49        -6.80859        51.90841        6.2     6.2     650739.36000    5753120.10000
2006-06-21    19:34:13        -6.81951        51.90515        6.2     6.2     649999.50000    5752735.00000
2006-06-21    19:37:31        -6.83476        51.90308        6.2     6.2     648957.17000    5752473.50000
2006-06-21    19:39:55        -6.84750        51.90275        6.2     6.2     648081.77000    5752411.50000
2006-06-21    19:42:22        -6.86246        51.90572        6.2     6.2     647043.59000    5752711.30000
2006-06-21    19:44:32        -6.87491        51.90647        6.2     6.2     646184.81000    5752769.00000
2006-06-21    19:47:01        -6.88648        51.89641        6.2     6.2     645421.25000    5751627.70000
2006-06-21    19:51:26        -6.89770        51.89913        6.2     6.2     644640.49000    5751907.60000
2006-06-21    19:53:36        -6.90755        51.90497        6.2     6.2     643943.96000    5752537.70000
2006-06-21    19:55:50        -6.92119        51.90624        6.2     6.2     643001.95000    5752651.50000
2006-06-21    19:58:00        -6.93272        51.90531        6.2     6.2     642212.04000    5752525.70000
2006-06-21    20:00:14        -6.94620        51.91235        6.2     6.2     641262.59000    5753283.00000
2006-06-21    20:02:31        -6.95391        51.92287        6.2     6.2     640699.10000    5754437.90000
2006-06-21    20:04:55        -6.96821        51.92892        6.2     6.2     639697.30000    5755083.10000
2006-06-21    20:07:07        -6.98130        51.93282        6.2     6.2     638785.69000    5755491.50000
2006-06-21    20:09:19        -6.99558        51.93392        6.2     6.2     637800.23000    5755586.10000
2006-06-21    20:11:30        -7.00972        51.93806        6.2     6.2     636815.72000    5756020.60000
2006-06-21    20:13:43        -7.02412        51.94170        6.2     6.2     635814.93000    5756398.40000
2006-06-21    20:15:56        -7.03805        51.94504        6.2     6.2     634847.64000    5756743.40000
2006-06-21    20:18:19        -7.05357        51.94017        6.2     6.2     633795.50000    5756173.70000
2006-06-21    20:20:49        -7.07035        51.93468        6.2     6.2     632658.47000    5755532.50000
2006-06-21    20:23:19        -7.08226        51.93128        6.2     6.2     631849.87000    5755132.10000
2006-06-21    20:25:31        -7.09397        51.93145        6.2     6.2     631044.01000    5755129.70000
2006-06-21    20:27:49        -7.10594        51.93418        6.2     6.2     630213.31000    5755412.60000
2006-06-21    20:30:07        -7.11838        51.93647        6.2     6.2     629351.69000    5755644.60000
2006-06-21    20:32:20        -7.13231        51.93359        6.2     6.2     628402.16000    5755299.60000
2006-06-21    20:34:43        -7.14559        51.92439        6.2     6.2     627515.21000    5754252.80000
2006-06-21    20:37:01        -7.15992        51.91804        6.2     6.2     626547.66000    5753521.60000
2006-06-21    20:39:20        -7.17634        51.91853        6.2     6.2     625417.35000    5753548.20000
2006-06-21    20:41:30        -7.19056        51.91872        6.2     6.2     624438.97000    5753544.40000
2006-06-21    20:43:49        -7.20412        51.91658        6.2     6.2     623512.48000    5753283.70000
2006-06-21    20:46:07        -7.21879        51.91735        6.2     6.2     622501.41000    5753344.50000
2006-06-21    20:48:19        -7.23236        51.91628        6.2     6.2     621571.44000    5753203.20000
2006-06-21    20:50:37        -7.24680        51.91654        6.2     6.2     620577.46000    5753208.20000
2006-06-21    20:52:48        -7.26108        51.91442        6.2     6.2     619601.28000    5752948.50000
2006-06-21    20:55:01        -7.27334        51.91375        6.2     6.2     618759.89000    5752853.70000
2006-06-21    20:57:14        -7.28510        51.91937        6.2     6.2     617936.13000    5753459.80000
2006-06-21    20:59:25        -7.29653        51.92360        6.2     6.2     617138.78000    5753911.50000
2006-06-21    21:01:36        -7.30587        51.92531        6.2     6.2     616492.58000    5754087.30000
2006-06-21    21:03:56        -7.32102        51.92161        6.2     6.2     615459.95000    5753651.10000
2006-06-21    21:06:06        -7.33423        51.92266        6.2     6.2     614549.49000    5753746.70000
2006-06-21    21:08:18        -7.34527        51.92961        6.2     6.2     613772.55000    5754502.50000
2006-06-21    21:10:37        -7.36041        51.93295        6.2     6.2     612723.16000    5754850.90000
2006-06-21    21:16:36        -7.40056        51.94133        6.2     6.2     609942.27000    5755721.40000
2006-06-21    21:18:49        -7.40028        51.94125        6.2     6.2     609962.29000    5755712.40000
2006-06-21    21:21:01        -7.40044        51.94117        6.2     6.2     609951.37000    5755703.60000
2006-06-21    21:23:25        -7.40046        51.94107        6.2     6.2     609949.79000    5755692.10000
2006-06-21    21:25:37        -7.40008        51.94118        6.2     6.2     609976.09000    5755705.00000
2006-06-21    21:27:55        -7.40016        51.94100        6.2     6.2     609971.02000    5755685.30000
2006-06-21    21:31:25        -7.40075        51.94086        6.2     6.2     609930.70000    5755669.00000
2006-06-21    21:34:33        -7.40036        51.94086        6.2     6.2     609957.63000    5755668.90000
2006-06-21    21:37:55        -7.40036        51.94075        6.2     6.2     609957.56000    5755656.40000

Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719

-----Original Message-----
From: Cl?ment Calenge [mailto:clement.calenge at oncfs.gouv.fr]
Sent: 21 April 2010 11:18
To: Samantha Patrick
Cc: r-sig-ecology at r-project.org
Subject: Re: [R-sig-eco] FPT and Adehabitat

Hard to say without any reproducible example... could you post an
example (minimum dataset + R code)?
Best regards,

Cl?ment Calenge

Samantha Patrick wrote:

    

I am calculating First Passage Time for GPS movements.  The code all runs fine and R recognises that an individual, for example, has 139 relocations.  However when I then view the FPT output there are 295 data points.  I have checked back and the data file, the imported data and  the number of time points all equal 139.  In the help it says that the FPT output is a data frame per individual with a row for each relocation so I cannot understand why it is outputting so many rows.  This happens for many individuals but there doesn't not seem to be any pattern in the number of output rows and occurs if I run individuals separately.  Has anyone ever come across this or have any ideas?

Many Thanks

Sam


Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA

T: 01752 584699
M: 07740472719


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