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mhalushka / miRge3.0

Comprehensive analysis of small RNA sequencing data
MIT License
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Does miRge3.0 output meet miRtop standard output? #103

Open JFsanchezherrero opened 4 days ago

JFsanchezherrero commented 4 days ago

I wonder if miRge3.0 output meets miRtop standard as in miRge2.0.

If not fully compatible, I wonder if at least the variant types are named following miRTOP suggested classification scheme: iso_5p, iso_3p, iso_add, iso_snv, iso_snv_seed, iso_snv_central_offset, iso_snv_central, iso_snv_central_suppl

https://pmc.ncbi.nlm.nih.gov/articles/PMC7566869/

Best regards

arunhpatil commented 2 days ago

Hi @JFsanchezherrero ,

Yes. It does, if you provide the parameter -gff, it will create a file "sample.gff" or similar. In that gff file you will have those annotations.

Please note, I am revising the isomiR functions (among others) and the update (new release) will soon be available.

Thank you, Arun.

JFsanchezherrero commented 1 day ago

Hi there @arunhpatil, Thank you very much!

Please, do not change that feature! ;)

Looking forward to new updates. Best regards