trim/filter on length/quality or use to convert fastq to fasta.
Clone this repo in your Galaxy Tools directory:
git clone https://github.com/naturalis/galaxy-tool-prinseq-sequence-trimmer
Make sure the script is executable:
chmod 755 galaxy-tool-prinseq-sequence-trimmer/prinseq.sh
Append the file tool_conf.xml:
<tool file="/path/to/Tools/ggalaxy-tool-prinseq-sequence-trimmer/prinseq.xml" />
Depending on your setup the ansible.builtin.git module could be used.
Install the tool by including the following in your dedicated *.yml file:
- repo: https://github.com/naturalis/galaxy-tool-prinseq-sequence-trimmer
file: prinseq.xml
version: master