QC_count_tables {ORFik} | R Documentation

## Create count table info for QC report

### Description

The better the annotation / gtf used, the more results you get.

### Usage

    QC_count_tables(df, out.dir, type = "ofst", BPPARAM = bpparam())

### Arguments

`df` | an ORFik `experiment`
`out.dir` | optional output directory, default: `dirname(df$filepath[1])`. Will make a folder called "QC_STATS" with all results in this directory.
`type` | a character(default: "default"), load files in experiment or some precomputed variant, either "ofst", "bedo", "bedoc" or "pshifted". These are made with ORFik:::convertLibs() or shiftFootprintsByExperiment(). Can also be custom user made folders inside the experiments bam folder.
`BPPARAM` | how many cores/threads to use? default: bpparam(). To see number of threads used, do `bpparam()$workers`

### Value

a data.table of the count info

[Package ORFik version 1.10.13 Index]