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lpantano / seqcluster

small RNA analysis from NGS data
http://seqcluster.readthedocs.io
MIT License
35 stars 17 forks source link

Unable to find documentation #53

Closed SarahLuca closed 6 months ago

SarahLuca commented 3 years ago

Hello, I am wondering about the following call to seqcluster that I found in a pipeline: seqcluster collapse -f reads -m 1 --min_size 15 -o some_folder

What do the options -m and --min_size do? Please let me know or point me to the documentation.

Thanks in advance!

lpantano commented 3 years ago

Hi, thank you for your question. That parameter is the minimum size of the sequences that will be kept in the output file. In this case, sequences less than 15nt are discarded. I hope this helped. Let me know. :)

SarahLuca commented 3 years ago

Thank you, that make sense. What about '-m' ?

lpantano commented 3 years ago

I forgot to answer that, it is the minimum counts that the sequences need to have to be kept in the output file.

SarahLuca commented 3 years ago

Thank you!