checkDefaultCommands()
Check for presence of command-line interfaces
fastqc()
Run FastQC
fastqscreen()
Run FastQ Screen
fetch()
Fetch files
fetchMetadata()
Fetch metadata for a genomic study
getAscpArgs()
Get ascp arguments
getAscpCmd()
Get ascp command
getSalmonMetadata()
Aggregrate metadata from salmon quantifications
getTx2gene()
Get mapping between transcripts and genes
multiqc()
Run MultiQC
salmon()
Run Salmon
seeker()
Process RNA-seq data end to end
trimgalore()
Run Trim Galore!
tximport()
Run tximport on RNA-seq quantifications