SeqSQC-class {SeqSQC} | R Documentation |
A SeqSQC object is a list of two objects. The first object gdsfile
is the filepath of the GDS (discussed in section below) file which stores the genotype information from the original VCF file. The second object QCresult
is a list of sample information and QC results, which include the dimension (# of samples and variants), sample annotation, and QC results for sample missing rate, sex check, inbreeding outlier check, IBD check, and population outlier check.
SeqSQC object Constructor
Method gdsfile.
Method QCresult.
SeqSQC(gdsfile, QCresult = List()) gdsfile(x) QCresult(x) ## S4 method for signature 'SeqSQC' gdsfile(x) ## S4 method for signature 'SeqSQC' QCresult(x)
gdsfile |
A character string for the filepath of the GDS file. |
QCresult |
A list with sample information and sample QC results. |
x |
an SeqSQCClass object. |
The filepath to the gds file.
gdsfile
A character string for the filepath of the GDS file.
QCresult
A list with sample information and sample QC results.
load(system.file("extdata", "example.seqfile.Rdata", package="SeqSQC")) gdsfile(seqfile) QCresult(seqfile)