QCstats {ORFik} | R Documentation |
Loads the pre / post alignment statistcs made in ORFik.
QCstats(df, path = file.path(dirname(df$filepath[1]), "/QC_STATS/STATS.csv"))
df |
an ORFik |
path |
path to QC statistics report, default: file.path(dirname(df$filepath[1]), "/QC_STATS/STATS.csv") |
The ORFik QC uses the aligned files (usually bam files), fastp and STAR log files combined with annotation to create relevant statistics.
data.table of QC report or NULL if not exists
Other QC report:
QCplots()
,
QCreport()
df <- ORFik.template.experiment()[3,] ## First make QC report # QCreport(df) # stats <- QCstats(df)