This is the command fix-trinity-output that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
fix-trinity-output - Fix output fastq files from Trinity
DESCRIPTION
Trinity outputs fastq files that have been 'corrected'
Unfortunately these files are no longer properly paired and therefore can't be used in
most aligners such as bowtie2 and snap
This script attempts to fix that and produce 2 properly paired fastq files and a fastq
file containing single reads
OPTIONS
--left, -l <s>:
fastq file of left reads
--right, -r <s>:
fastq file of right reads
--output, -o <s>:
output prefix
--help, -h:
Show this message
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