SeqSQC-package: Sample Quality Check for NGS Data using SeqSQC package

In SeqSQC: A bioconductor package for sample quality check with next generation sequencing data

Description

SeqSQC

Details

Sample Quality Check for NGS Data.

Author(s)

Qian Liu

See Also

LoadVfile
for data preparation;
MissingRate
PCACheck
Inbreeding
IBDCheck
PCACheck
for individual sample QC checks;
problemList
for the summary of problematic samples with reason and sample list to be removed;
IBDRemove
for the problematic sample pairs detected with cryptic relationship;
RenderReport
to generate the sample QC report;
plotQC
to generate the ggplot or interactive plots in html format for each individual QC check;
sampleQC
for wrapper of data preparation, all sample QC checks, QC result summary, and sample QC report.

SeqSQC documentation built on Nov. 8, 2020, 5:03 p.m.