Description Usage Arguments Value Author(s) References See Also Examples
View source: R/read.outcross2.R
This version implements the read.outcross
function in a faster
way. Everything else is essentially the same.
1 | read.outcross2(infile)
|
infile |
the name of the input file which contains the data to be read. |
An object of class outcross
, i.e., a list with the following
components:
geno |
a matrix with integers indicating the genotypes read for each marker. Each column contains data for a marker and each row represents an individual. |
n.ind |
number of individuals. |
n.mar |
number of markers. |
segr.type |
a vector with the
segregation type of each marker, as |
segr.type.num |
a
vector with the segregation type of each marker, represented in a
simplified manner as integers, i.e. 1 corresponds to markers of type
|
n.phe |
the number of traits included in the file |
pheno |
the name of the phenoytpes |
input |
the name of the input file. |
Adapted from Karl Broman (package qtl) by Gabriel R A Margarido, gramarga@gmail.com, later with additions from Luciano C Silva
Broman, K. W., Wu, H., Churchill, G., Sen, S., Yandell, B. (2008) qtl: Tools for analyzing QTL experiments R package version 1.09-43
Lincoln, S. E., Daly, M. J. and Lander, E. S. (1993) Constructing genetic linkage maps with MAPMAKER/EXP Version 3.0: a tutorial and reference manual. A Whitehead Institute for Biomedical Research Technical Report.
Wu, R., Ma, C.-X., Painter, I. and Zeng, Z.-B. (2002) Simultaneous maximum likelihood estimation of linkage and linkage phases in outcrossing species. Theoretical Population Biology 61: 349-363.
example
directory in the package source.
1 2 3 4 5 | ## Not run:
outcr_data <-
read.outcross2("data_file.txt")
## End(Not run)
|
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.