Penn SCAP-T Pipeline: Documentation
| Back ↩ | License (pdf) |
Module: POST
This module will compress all fastq files in the specified directory.
Usage:
ngs.sh post [-i inputDir] sampleID
Input:
sampleID/INPUTDIR/*.fq
Output:
sampleID/INPUTDIR/*.fq.gz
Options:
-i - directory containing fastq files to be compressed with gzip (default: sampleID/trim).
Compresses all files that end with 'fq'. For example the unaligned_1.fq file in the trim directory will be compressed with gzip and renamed unaligned_1.fq.gz.