extractCoverageFromVcf {DEploid.utils} | R Documentation |
Extract VCF information
Description
Extract VCF information
Usage
extractCoverageFromVcf(filename, samplename)
Arguments
filename |
VCF file name. |
samplename |
Sample name |
Value
A dataframe list with members of haplotypes, proportions and log likelihood of the MCMC chain.
-
CHROM
SNP chromosomes. -
POS
SNP positions. -
refCount
reference allele count. -
altCount
alternative allele count.
See Also
-
extractCoverageFromVcf
-
extractCoverageFromTxt
Examples
vcfFile = system.file("extdata", "PG0390-C.test.vcf.gz", package = "DEploid.utils")
vcf = extractCoverageFromVcf(vcfFile, "PG0390-C")
[Package DEploid.utils version 0.0.1 Index]