missing rename_cds_to_exon.py and sqanti3_protein.py scripts

sheynkman-lab / Long-Read-Proteogenomics

A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.

MIT License

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missing rename_cds_to_exon.py and sqanti3_protein.py scripts #157

Closed tabeariepe closed 2 years ago

tabeariepe commented 2 years ago

Hi,

I am trying to apply your pipeline to my data. However, I am stuck because I cannot find the missing rename_cds_to_exon.py and sqanti3_protein.py scripts scripts in the modules folder. Is it possible that you also provide these scripts (or maybe there are somewhere else and I just did not see them)?

bj8th commented 2 years ago

Hi @tabeariepe

The two modules were located in a different repository, https://github.com/sheynkman-lab/sqanti3-docker. I have added them into this repo and am closing the issue.

Thanks!