Parse GTF on the fly - Githubissues

CCBR / Pipeliner

An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.

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Open kopardev opened 4 years ago

kopardev commented 4 years ago

Currently index files for 5 different readlengths (overhang) are generated using PIM
Need to change this to:
- One STAR index with just fasta file ... no GTF
- determine overhang on the fly ... based off of mean readlength of current sample
- parse overhang and GTF on the fly to rules STAR1p and STAR2p