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Items tagged with: bioawk


#bioawk is a command-line gem; it’s an extension of awk that auto-assigns variables for BED, SAM, VCF, GFF, and FASTX[AQ] format files, speeding up routine tasks.

For FASTX:
$1:name
$2:seq
$3:qual (FASTQ only)
$4:comment

Found in @vsbuffalo’s great #Bioinformatics Data Skills.

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