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miRTop / mirtop

command lines tool to annotate miRNAs with a standard mirna/isomir naming
https://mirtop.readthedocs.org
MIT License
18 stars 21 forks source link

Convert GFF to isomiRs input #20

Closed lpantano closed 6 years ago

lpantano commented 6 years ago

It needs to convert from a GFF file:

https://github.com/miRTop/mirtop/blob/dev/data/examples/gff/correct_file.gff

to a file like this:

https://github.com/miRTop/mirtop/blob/dev/data/examples/seqbuster/reads20.mirna

To be compatible with https://github.com/lpantano/isomiRs

This can be implemented inside gff folder inside convert.py file. And it should be called as mirtop make -i GFF_FILE --format isomiRs -o OUT_FOLDER

shruthibandyadka commented 6 years ago

Hi Lorena, I'm trying to push to the repo and don't have permissions. Would you be able to add me to this repo?

lpantano commented 6 years ago

Hi can be continue here: https://gitter.im/mirtop/devel. I can help you then. We would like to use the fork - PR strategy here.