firstQC: Do a standardised quality control, it cleans your data by...
In benabidlina/HLAfix: HLA Analysis Pipeline for large-scale Association Studies
Description
Usage
Arguments
Value
Description
Do a standardised quality control, it cleans your data by removing not informative's SNP and analyze stratification of your population
Usage
1
2
Arguments
bedFile
.bed file containing the packed binary SNP genotype data
bimFile
.bim file containingthe SNP descriptions
famFile
.fam file containing subject (and, possibly, family) identifiers. This is basically a tab-delimited "pedfile"
vcf
variant call format file
outputFolder
folder where to save the result
outputFile
Name wanted for your VCF
Value
Write a summary of the data after the quality control and cleaned file
benabidlina/HLAfix documentation built on Aug. 20, 2021, 11:53 p.m.
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Description Usage Arguments Value
Description
Do a standardised quality control, it cleans your data by removing not informative's SNP and analyze stratification of your population
Usage
1 2 |
Arguments
bedFile |
.bed file containing the packed binary SNP genotype data |
bimFile |
.bim file containingthe SNP descriptions |
famFile |
.fam file containing subject (and, possibly, family) identifiers. This is basically a tab-delimited "pedfile" |
vcf |
variant call format file |
outputFolder |
folder where to save the result |
outputFile |
Name wanted for your VCF |
Value
Write a summary of the data after the quality control and cleaned file
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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