QCstats: Load ORFik QC Statistics report

In ORFik: Open Reading Frames in Genomics

Description

Loads the pre / post alignment statistcs made in ORFik.

Usage

QCstats(df, path = file.path(dirname(df$filepath[1]), "/QC_STATS/STATS.csv"))

Arguments

df	an ORFik experiment
path	path to QC statistics report, default: file.path(dirname(df$filepath[1]), "/QC_STATS/STATS.csv")

Details

The ORFik QC uses the aligned files (usually bam files), fastp and STAR log files combined with annotation to create relevant statistics.

Value

data.table of QC report or NULL if not exists

See Also

Other QC report: QCplots(), QCreport()

Examples

df <- ORFik.template.experiment()[3,]
## First make QC report
# QCreport(df)
# stats <- QCstats(df)

ORFik documentation built on March 27, 2021, 6 p.m.