On 9 Dec 2016, at 11:50, Vojt?ch Zeisek <vojta at trapa.cz> wrote:
Dne p?tek 9. prosince 2016 11:33:21 CET, Bhuller, Ravneet napsal(a):
Hello R-sig-genetics community members,
I am using microsatellite data for the first time. It is in csv format.
Individual ids (1314 in total) are in the first column of the file (a
snapshot attached below) and the allelic information of each loci (17 loci)
is in duplicate columns.
[cid:F92F6AA3-0C16-4642-843F-476A5B1D6839 at nhm.ac.uk]
When I convert this data.frame into genind object using adegent, it is
considering first column as a locus and calculates number of loci as 35
(see below): [cid:423CE768-65F3-4B01-9E38-63CA0FD5ABF1 at nhm.ac.uk]
Please if anyone can guide me what is going wrong here. The actual number of
loci is 17 and first column is not a locus.
Hi,
it is well documented in the Adegent basics tutorial. Mine shortened version
is in https://trapa.cz/en/course-molecular-data-r-2016 (see PDF attachment
down the page from slide 42).
HTH,
V.
--
Vojt?ch Zeisek
https://trapa.cz/en/
Department of Botany
Faculty of Science, Charles University
Ben?tsk? 433/2, Prague, 12801, CZ
https://www.natur.cuni.cz/biology/botany/
Institute of Botany, Academy of Sciences
Z?mek 1, Pr?honice, 25243, CZ
http://www.ibot.cas.cz/en/
Czech Republic