transcript_GC: Transcript GenClone files
In dbailleul/RClone: Partially Clonal Populations Analysis

Description Usage Arguments Details Value Note Author(s) References See Also Examples

transcript_GC allows conversion from GenClone files to RClone files.

1	transcript_GC(obj, ele, num1, num2, num3)

`obj`	a `.csv` file from GenClone (`.txt` saved as `.csv`).
`ele`	option, separator element for import.
`num1`	numeric, the number of loci.
`num2`	numeric, the ploidy level. 2 for diploids and 1 for haploids.
`num3`	numeric, the length of each allele.

GenClone files are generally .txt files named infile.txt. You must save it as .csv file with ";" as separators and, if necessary, change "," by ".".

transcript_GC returns a list of:

`data_genet`	a table of genotypes, one allele per column and one unit per row,
`data_coord`	a table of x/y coordinates,
`names_loci`	a vector of names of the loci,
`names_units`	a vector of names of the units.

transcript_GC works only with infile files full of informations (loci names, ploidy names, etc.).

Creator/Author: Diane Bailleul <diane.bailleul.pro@gmail.com>
Author: Sophie Arnaud-Haond <sophie.arnaud@ifremer.fr>
Contributor: Solenn Stoeckel

The R implementation of RClone was written by Diane Bailleul.

The design was inspired by GenClone program described in Arnaud-Haond & Belkhir (2007).

Arnaud-Haond et al., 2007, Standardizing methods to address clonality in population studies.

sort_all for sorting users tables with one allele per column.

data(infile)
#This is nearly a GenClone file, type:
#write.table(infile, "infile.csv", col.names = FALSE, row.names = FALSE, sep = ";")
#Now you have a formatted GenClone file:
#res <- transcript_GC("infile.csv", ";", 2, 7, 3)
#data1 <- res$data_genet
#coord <- res$data_coord