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Published 20 hours ago • verified publisher icon nf-core

Optimise STAR parameters to require only one STAR alignment

Open joshua-biocoder opened this issue 7 months ago • 1 comments

Description of feature

Hi,

I was exploring this tool, and I see that you are using STAR alignment 3 times (for arriba, squid, and starfusion). Could you please explain the reason for using different STAR parameters for each of these tools? Also, please let me know if it's possible to optimize these parameters so that I can run STAR alignment only once and use the subsequent bam and chimeric file for all these 3 tools.

joshua-biocoder avatar Nov 15 '23 17:11 joshua-biocoder