plink2vcf: Check and fix strand, check reference alleles and remove...
In benabidlina/HLAfix: HLA Analysis Pipeline for large-scale Association Studies
Description
Usage
Arguments
Value
Description
Check and fix strand, check reference alleles and remove duplicate. These QC are recommended by Sanger server imputation: wrayner@well.ox.ac.uk
Usage
1
plink2vcf(dataFolder, plinkFile, outputFile, outputFolder)
Arguments
dataFolder
folder containing bed/bim/fam and .frq files
plinkFile
bed/bim/fam file's name without extension and without pathways
outputFile
Name wanted for your VCF
outputFolder
folder where to save the resul
Value
VCF file ready for SNP imputation
benabidlina/HLAfix documentation built on Aug. 20, 2021, 11:53 p.m.
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Description Usage Arguments Value
Description
Check and fix strand, check reference alleles and remove duplicate. These QC are recommended by Sanger server imputation: wrayner@well.ox.ac.uk
Usage
1 | plink2vcf(dataFolder, plinkFile, outputFile, outputFolder)
|
Arguments
dataFolder |
folder containing bed/bim/fam and .frq files |
plinkFile |
bed/bim/fam file's name without extension and without pathways |
outputFile |
Name wanted for your VCF |
outputFolder |
folder where to save the resul |
Value
VCF file ready for SNP imputation
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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