mgkit.workflow.fastq_utils module

Commands

• Interleave/deinterleave paired-end fastq files.

• Converts to FASTA

• sort 2 files to sync the headers

Changes

Changed in version 0.3.4: moved to use click, internal fastq parsing, removed rand command

Changed in version 0.3.1: added stdin/stdout defaults for some commands

Changed in version 0.3.0: added convert command to FASTA

mgkit.workflow.fastq_utils.report_counts(count, wcount, counter=None)

Logs the status