Extract_Double_co_all_chr: Extract the number of double genotype swith ,which is...
In yanjunzan/TD: This is a R package processing output from TIGER pipeline.
Description
Usage
Arguments
Value
Author(s)
References
Description
more accurated double cross over estimation should be done in Rqtl.
Usage
1
Extract_Double_co_all_chr(id_all,all_vcf,chromosome = chr,gap=3e6,filter=T)
Arguments
id_all
the Id of all the individuals after TIGER run
filter
if the double recombination within a certain distance(gap) should be filtered
all_vcf
links to the TIGER output
chromosome
all the chromsomes in TIGER run
gap
genotype swithing twich within this distance will be filtered out
Value
co
A list contain number of double genotype swich from chromsome 1 to N, and their sum for all the individuals
dis
the distances between those double switches for each individual
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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Description Usage Arguments Value Author(s) References
Description
more accurated double cross over estimation should be done in Rqtl.
Usage
1 | Extract_Double_co_all_chr(id_all,all_vcf,chromosome = chr,gap=3e6,filter=T)
|
Arguments
id_all |
the Id of all the individuals after TIGER run |
filter |
if the double recombination within a certain distance(gap) should be filtered |
all_vcf |
links to the TIGER output |
chromosome |
all the chromsomes in TIGER run |
gap |
genotype swithing twich within this distance will be filtered out |
Value
co |
A list contain number of double genotype swich from chromsome 1 to N, and their sum for all the individuals |
dis |
the distances between those double switches for each individual |
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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