wrap_get_density: A function to get the number of markers along consecutive...
In yanjunzan/TD: This is a R package processing output from TIGER pipeline.
Usage
Arguments
Value
Author(s)
References
Usage
1
wrap_get_density(inputfile,binsize,cut=T,chr.match,cutoff=10)
Arguments
inputfile
A txt input file for TIGER pipeline, usually strat with chr and pos followed by Alleles from one line, allele call,and alleles from another line,and corresponding allele call
binsize
The size of the genomic bins
cut
If the bins with too few markers should be discarded
chr.match
a file matching Contig names to chromsome,
cutoff
if the number of markers in a bin is smaller than cutoff, this bin would be discarded
Value
return a vector with number of markers for this input file.
Author(s)
Yanjun Zan, Thibaut Payen
References
Yanjun Zan, Thibaut Payen, Mette Lillie Leif Andersson, Paul B. Siegel and Örjan Carlborg;Whole-genome QTL mapping in experimental pedigrees from outbred founders utilizing low coverage individual based sequencing 2018
yanjunzan/TD documentation built on May 18, 2019, 3:40 a.m.
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Usage Arguments Value Author(s) References
Usage
1 | wrap_get_density(inputfile,binsize,cut=T,chr.match,cutoff=10)
|
Arguments
inputfile |
A txt input file for TIGER pipeline, usually strat with chr and pos followed by Alleles from one line, allele call,and alleles from another line,and corresponding allele call |
binsize |
The size of the genomic bins |
cut |
If the bins with too few markers should be discarded |
chr.match |
a file matching Contig names to chromsome, |
cutoff |
if the number of markers in a bin is smaller than cutoff, this bin would be discarded |
Value
return a vector with number of markers for this input file.
Author(s)
Yanjun Zan, Thibaut Payen
References
Yanjun Zan, Thibaut Payen, Mette Lillie Leif Andersson, Paul B. Siegel and Örjan Carlborg;Whole-genome QTL mapping in experimental pedigrees from outbred founders utilizing low coverage individual based sequencing 2018
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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