Help with looping a function over a list of dataframes:
---------- Forwarded message --------- From: Kathan Desai <kdesai1 at sheffield.ac.uk> Date: Sat, 4 Jul 2020 at 14:31 Subject: Re: [R] Help with looping a function over a list of dataframes: To: Jim Lemon <drjimlemon at gmail.com> Hi Jim, Thankyou for your reply, I tried the function you suggested and it doesn't seem to work. There are again no error messages produced, however the transformation to each position_tab_n table isn't being applied. Cheers, Kathan
On Sat, 4 Jul 2020 at 11:14, Jim Lemon <drjimlemon at gmail.com> wrote:
Hi Kathan,
This is a very lazy answer as I haven't tested it. I think you will
need to wrap your loop in a function and return the modified list_df
to assign it like this:
add_IDs<-function(xdf) {
for(i in seq_along(xdf)) {
xdf$position_tab_[[i]]$ID <-
unlist(lapply(xdf$position_tab_[[i]]$midpoint, function(x)
ifelse(any(abs(x - xdf$position_tab_[[i-1]]$midpoint)<= 1),1,0)))
}
return(xdf)
}
list_df<-add_IDs(list_df)
Jim
On Sat, Jul 4, 2020 at 4:48 PM Kathan Desai <kdesai1 at sheffield.ac.uk>
wrote:
I have been trying to run a forloop for a function that compares
dataframe n
with dataframe n-1, across a list of dataframes. It does this by checking each midpoint of dataframe n with each midpoint of dataframe n-1. This is done to make up for an disparity in row length. The idea of this code is
to
identify any objects that are stationary, and assign them an id of 1, and the dynamic objects are assigned an id of 0 (examples can be found
below).
*This is what i have so far:*
for(i in seq_along(list_df)){
list_df$position_tab_[[i]]$ID <-
unlist(lapply(list_df$position_tab_[[i]]$midpoint, function(x)
ifelse(any(abs(x -
list_df$position_tab_[[i-1]]$midpoint)
<= 1),1,0)
))
}
There is no error message being produced so theres nothing to debug, i am
quite new to R programming in general so excuse any silly mistakes i may
have made. The function doesnt seem to be adding the ID columns and
comparing the data as it should.
my list of dataframes contain dataframes named: position_tab_1,
position_tab_2 .... position_tab_121. Each position_tab represents a
timepoints, so in total there are 121 timepoints (frames). I need the
loop
to run so that pos_tab_2 compares to pos_tab_1 and this continues all the way to pos_tab_121 comparing to pos_tab_120. The function adds a column named "id" to each of these dataframes as it compares to the dataframe before it, so all dataframes apart from position_tab_1 (as it has nothing to compare to) should have this added. *Some of my data (first 10 dataframes in list):*
dput(list_df[1:10])
list(position_tab_1 = structure(list(Object = c(2666L, 2668L,
2671L, 2674L, 2676L, 2677L, 2678L, 2679L, 2680L, 2682L, 2683L,
2684L, 2685L, 2686L, 2687L, 2689L, 2692L, 2693L, 2694L, 2695L,
2696L), minimum = c(4L, 39L, 147L, 224L, 419L, 531L, 595L, 641L,
669L, 723L, 810L, 836L, 907L, 978L, 1061L, 1129L, 1290L, 1519L,
1749L, 1843L, 1897L), maximum = c(22L, 85L, 173L, 242L, 449L,
587L, 627L, 655L, 702L, 740L, 828L, 890L, 923L, 1024L, 1086L,
1144L, 1302L, 1544L, 1780L, 1870L, 1925L), midpoint = c(13, 62,
160, 233, 434, 559, 611, 648, 685.5, 731.5, 819, 863, 915, 1001,
1073.5, 1136.5, 1296, 1531.5, 1764.5, 1856.5, 1911)), row.names = c(NA,
-21L), class = c("tbl_df", "tbl", "data.frame")), position_tab_2 =
structure(list(
Object = c(2645L, 2646L, 2650L, 2652L, 2655L, 2656L, 2657L,
2658L, 2659L, 2661L, 2662L, 2663L, 2664L, 2665L, 2667L, 2670L,
2675L, 2681L, 2688L, 2690L, 2691L), minimum = c(4L, 40L,
147L, 224L, 415L, 532L, 595L, 641L, 670L, 722L, 811L, 835L,
907L, 978L, 1061L, 1128L, 1289L, 1520L, 1748L, 1843L, 1897L
), maximum = c(22L, 85L, 173L, 242L, 445L, 588L, 627L, 655L,
702L, 739L, 828L, 891L, 923L, 1022L, 1085L, 1143L, 1302L,
1544L, 1779L, 1870L, 1925L), midpoint = c(13, 62.5, 160,
233, 430, 560, 611, 648, 686, 730.5, 819.5, 863, 915, 1000,
1073, 1135.5, 1295.5, 1532, 1763.5, 1856.5, 1911)), row.names = c(NA,
-21L), class = c("tbl_df", "tbl", "data.frame")), position_tab_3 =
structure(list(
Object = c(2623L, 2624L, 2627L, 2631L, 2633L, 2635L, 2636L,
2637L, 2638L, 2640L, 2641L, 2642L, 2643L, 2644L, 2647L, 2649L,
2654L, 2660L, 2669L, 2672L, 2673L), minimum = c(3L, 39L,
149L, 223L, 402L, 539L, 594L, 639L, 669L, 722L, 811L, 834L,
907L, 979L, 1060L, 1129L, 1289L, 1520L, 1749L, 1842L, 1897L
), maximum = c(22L, 86L, 175L, 241L, 431L, 587L, 627L, 653L,
700L, 738L, 828L, 894L, 925L, 1021L, 1084L, 1144L, 1302L,
1544L, 1779L, 1869L, 1925L), midpoint = c(12.5, 62.5, 162,
232, 416.5, 563, 610.5, 646, 684.5, 730, 819.5, 864, 916,
1000, 1072, 1136.5, 1295.5, 1532, 1764, 1855.5, 1911)), row.names =
c(NA,
-21L), class = c("tbl_df", "tbl", "data.frame")), position_tab_4 =
structure(list(
Object = c(2600L, 2604L, 2606L, 2609L, 2611L, 2613L, 2614L,
2615L, 2617L, 2618L, 2619L, 2620L, 2621L, 2622L, 2626L, 2628L,
2632L, 2639L, 2648L, 2651L, 2653L), minimum = c(4L, 42L,
142L, 223L, 393L, 547L, 595L, 641L, 669L, 720L, 809L, 835L,
908L, 979L, 1059L, 1127L, 1289L, 1519L, 1749L, 1841L, 1897L
), maximum = c(22L, 85L, 172L, 241L, 421L, 587L, 629L, 655L,
701L, 738L, 826L, 890L, 925L, 1019L, 1084L, 1143L, 1301L,
1544L, 1780L, 1868L, 1925L), midpoint = c(13, 63.5, 157,
232, 407, 567, 612, 648, 685, 729, 817.5, 862.5, 916.5, 999,
1071.5, 1135, 1295, 1531.5, 1764.5, 1854.5, 1911)), row.names = c(NA,
-21L), class = c("tbl_df", "tbl", "data.frame")), position_tab_5 =
structure(list(
Object = c(2580L, 2581L, 2585L, 2586L, 2589L, 2590L, 2592L,
2593L, 2594L, 2595L, 2596L, 2597L, 2598L, 2599L, 2601L, 2603L,
2605L, 2610L, 2616L, 2625L, 2629L, 2630L, 2634L), minimum = c(3L,
43L, 132L, 223L, 391L, 547L, 643L, 669L, 721L, 808L, 836L,
861L, 908L, 978L, 1028L, 1057L, 1127L, 1288L, 1519L, 1748L,
1842L, 1893L, 2148L), maximum = c(21L, 85L, 168L, 241L, 419L,
629L, 656L, 701L, 738L, 828L, 858L, 890L, 925L, 1013L, 1050L,
1083L, 1143L, 1301L, 1544L, 1780L, 1869L, 1925L, 2148L),
midpoint = c(12, 64, 150, 232, 405, 588, 649.5, 685, 729.5,
818, 847, 875.5, 916.5, 995.5, 1039, 1070, 1135, 1294.5,
1531.5, 1764, 1855.5, 1909, 2148)), row.names = c(NA, -23L
), class = c("tbl_df", "tbl", "data.frame")), position_tab_6 =
structure(list(
Object = c(2555L, 2559L, 2562L, 2563L, 2564L, 2567L, 2569L,
2570L, 2571L, 2572L, 2573L, 2574L, 2575L, 2576L, 2577L, 2579L,
2583L, 2587L, 2591L, 2602L, 2607L, 2608L, 2612L), minimum = c(4L,
45L, 123L, 154L, 224L, 390L, 546L, 600L, 643L, 669L, 720L,
804L, 836L, 908L, 967L, 1058L, 1129L, 1289L, 1519L, 1748L,
1843L, 1893L, 2147L), maximum = c(23L, 86L, 150L, 171L, 241L,
419L, 589L, 636L, 657L, 701L, 738L, 827L, 879L, 925L, 1011L,
1084L, 1144L, 1301L, 1543L, 1780L, 1871L, 1924L, 2148L),
midpoint = c(13.5, 65.5, 136.5, 162.5, 232.5, 404.5, 567.5,
618, 650, 685, 729, 815.5, 857.5, 916.5, 989, 1071, 1136.5,
1295, 1531, 1764, 1857, 1908.5, 2147.5)), row.names = c(NA,
-23L), class = c("tbl_df", "tbl", "data.frame")), position_tab_7 =
structure(list(
Object = c(2537L, 2539L, 2540L, 2541L, 2542L, 2544L, 2546L,
2547L, 2548L, 2549L, 2550L, 2551L, 2552L, 2554L, 2556L, 2558L,
2560L, 2565L, 2568L, 2578L, 2582L, 2584L, 2588L), minimum = c(3L,
45L, 122L, 156L, 224L, 387L, 546L, 601L, 669L, 719L, 803L,
837L, 908L, 959L, 1059L, 1096L, 1128L, 1289L, 1519L, 1748L,
1844L, 1892L, 2147L), maximum = c(22L, 86L, 147L, 172L, 241L,
415L, 590L, 656L, 699L, 738L, 830L, 871L, 924L, 1014L, 1082L,
1119L, 1144L, 1301L, 1543L, 1781L, 1872L, 1925L, 2148L),
midpoint = c(12.5, 65.5, 134.5, 164, 232.5, 401, 568, 628.5,
684, 728.5, 816.5, 854, 916, 986.5, 1070.5, 1107.5, 1136,
1295, 1531, 1764.5, 1858, 1908.5, 2147.5)), row.names = c(NA,
-23L), class = c("tbl_df", "tbl", "data.frame")), position_tab_8 =
structure(list(
Object = c(2514L, 2517L, 2519L, 2520L, 2521L, 2523L, 2525L,
2526L, 2527L, 2528L, 2529L, 2530L, 2531L, 2532L, 2533L, 2534L,
2536L, 2543L, 2545L, 2553L, 2557L, 2561L, 2566L), minimum = c(5L,
44L, 121L, 153L, 224L, 380L, 546L, 603L, 668L, 721L, 802L,
841L, 907L, 960L, 1006L, 1060L, 1106L, 1288L, 1518L, 1748L,
1843L, 1893L, 2148L), maximum = c(23L, 86L, 146L, 170L, 242L,
409L, 588L, 655L, 699L, 738L, 830L, 872L, 924L, 994L, 1029L,
1084L, 1143L, 1302L, 1543L, 1781L, 1870L, 1925L, 2148L),
midpoint = c(14, 65, 133.5, 161.5, 233, 394.5, 567, 629,
683.5, 729.5, 816, 856.5, 915.5, 977, 1017.5, 1072, 1124.5,
1295, 1530.5, 1764.5, 1856.5, 1909, 2148)), row.names = c(NA,
-23L), class = c("tbl_df", "tbl", "data.frame")), position_tab_9 =
structure(list(
Object = c(2492L, 2493L, 2497L, 2498L, 2499L, 2501L, 2503L,
2504L, 2505L, 2506L, 2507L, 2508L, 2509L, 2510L, 2511L, 2513L,
2516L, 2522L, 2524L, 2532L, 2535L, 2538L), minimum = c(6L,
44L, 111L, 149L, 224L, 375L, 548L, 596L, 668L, 722L, 800L,
840L, 908L, 960L, 1005L, 1058L, 1127L, 1289L, 1519L, 1748L,
1842L, 1891L), maximum = c(24L, 81L, 137L, 167L, 242L, 403L,
589L, 656L, 699L, 738L, 828L, 872L, 925L, 994L, 1028L, 1081L,
1149L, 1302L, 1544L, 1780L, 1868L, 1924L), midpoint = c(15,
62.5, 124, 158, 233, 389, 568.5, 626, 683.5, 730, 814, 856,
916.5, 977, 1016.5, 1069.5, 1138, 1295.5, 1531.5, 1764, 1855,
1907.5)), row.names = c(NA, -22L), class = c("tbl_df", "tbl",
"data.frame")), position_tab_10 = structure(list(Object = c(2469L,
2471L, 2474L, 2475L, 2476L, 2478L, 2481L, 2482L, 2483L, 2484L,
2485L, 2486L, 2487L, 2488L, 2489L, 2491L, 2495L, 2500L, 2502L,
2512L, 2515L, 2518L), minimum = c(6L, 38L, 109L, 147L, 223L,
363L, 548L, 597L, 668L, 719L, 803L, 839L, 908L, 958L, 1004L,
1058L, 1126L, 1288L, 1519L, 1746L, 1841L, 1892L), maximum = c(24L,
76L, 134L, 165L, 240L, 394L, 591L, 656L, 698L, 737L, 829L, 869L,
924L, 996L, 1027L, 1081L, 1147L, 1301L, 1543L, 1781L, 1868L,
1925L), midpoint = c(15, 57, 121.5, 156, 231.5, 378.5, 569.5,
626.5, 683, 728, 816, 854, 916, 977, 1015.5, 1069.5, 1136.5,
1294.5, 1531, 1763.5, 1854.5, 1908.5)), row.names = c(NA, -22L
), class = c("tbl_df", "tbl", "data.frame")))
*What is produced when running the base code without any loops:*
This is the base code without me trying to loop it in anyway, below is
what
it produces when its used with dataframe 4 and 5: #the code: list_df$position_tab_5$ID <-
unlist(lapply(list_df$position_tab_5$midpoint,
function(x) ifelse(any(abs(x - list_df$position_tab_4$midpoint) <=
1),1,0)))
##position_tab_5 after manipulations have occured:
structure(list(Object = c(2580L, 2581L, 2585L, 2586L, 2589L,
2590L, 2592L, 2593L, 2594L, 2595L, 2596L, 2597L, 2598L, 2599L,
2601L, 2603L, 2605L, 2610L, 2616L, 2625L, 2629L, 2630L, 2634L
), minimum = c(3L, 43L, 132L, 223L, 391L, 547L, 643L, 669L, 721L,
808L, 836L, 861L, 908L, 978L, 1028L, 1057L, 1127L, 1288L, 1519L,
1748L, 1842L, 1893L, 2148L), maximum = c(21L, 85L, 168L, 241L,
419L, 629L, 656L, 701L, 738L, 828L, 858L, 890L, 925L, 1013L,
1050L, 1083L, 1143L, 1301L, 1544L, 1780L, 1869L, 1925L, 2148L
), midpoint = c(12, 64, 150, 232, 405, 588, 649.5, 685, 729.5,
818, 847, 875.5, 916.5, 995.5, 1039, 1070, 1135, 1294.5, 1531.5,
1764, 1855.5, 1909, 2148), ID = c(1, 1, 0, 1, 0, 0, 0, 1, 1,
1, 0, 0, 1, 0, 0, 0, 1, 1, 1, 1, 1, 0, 0)), row.names = c(NA,
-23L), class = c("tbl_df", "tbl", "data.frame"))
#position_tab_4 (the DF pos_tab_5 is being compared to)
structure(list(Object = c(2600L, 2604L, 2606L, 2609L, 2611L,
2613L, 2614L, 2615L, 2617L, 2618L, 2619L, 2620L, 2621L, 2622L,
2626L, 2628L, 2632L, 2639L, 2648L, 2651L, 2653L), minimum = c(4L,
42L, 142L, 223L, 393L, 547L, 595L, 641L, 669L, 720L, 809L, 835L,
908L, 979L, 1059L, 1127L, 1289L, 1519L, 1749L, 1841L, 1897L),
maximum = c(22L, 85L, 172L, 241L, 421L, 587L, 629L, 655L,
701L, 738L, 826L, 890L, 925L, 1019L, 1084L, 1143L, 1301L,
1544L, 1780L, 1868L, 1925L), midpoint = c(13, 63.5, 157,
232, 407, 567, 612, 648, 685, 729, 817.5, 862.5, 916.5, 999,
1071.5, 1135, 1295, 1531.5, 1764.5, 1854.5, 1911)), row.names = c(NA,
-21L), class = c("tbl_df", "tbl", "data.frame"))
*Appreciate any help, anyone can provide!*
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