pooldata-class | R Documentation |
S4 class to represent a Pool-Seq data set.
npools
The number of pools
nsnp
The number of SNPs
refallele.readcount
A matrix (nsnp rows and npools columns) with read count data for the reference allele
readcoverage
A matrix (nsnp rows and npools columns) with overall read coverage
snp.info
A data frame (nsnp rows and 4 columns) detailing for each SNP, the chromosome (or scaffold), the position, Reference allele name and Alternate allele name (if available)
poolsizes
A vector of length npools with the corresponding haploid pool sizes
poolnames
A vector of length npools with the corresponding haploid pool names
To generate pooldata object, see vcf2pooldata
, popsync2pooldata
, genobaypass2pooldata
and genoselestim2pooldata
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