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alexdobin / STAR

RNA-seq aligner
MIT License
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Updating STAR index #437

Closed sagnikbanerjee15 closed 6 years ago

sagnikbanerjee15 commented 6 years ago

Hello Alex,

Is it possible to check which fasta sequence ids were used to generate a given STAR index? I also was wondering if there is a chance to update a current index with more sequences.

Thank you.

alexdobin commented 6 years ago

Hi Sagnik.

the FASTA sequence ids are stored in the chrName.txt file in the genome directory. You can add new genome sequences on-the-fly at the mapping stage by specifying --genomeFastaFiles but you cannot replace/delete the old genome sequences.

Cheers Alex

sagnikbanerjee15 commented 6 years ago

Thank you very much. Sagnik Banerjee Graduate Research Assistant Bioinformatics and Computational Biology Department of Plant Pathology and Microbiology Dr. Roger Wise's Lab Iowa State University

*"The moment I have realized God sitting in the temple of every human body, the moment I stand in reverence before every human being and see God in him

ᐧ

On Fri, Jun 22, 2018 at 3:19 PM alexdobin notifications@github.com wrote:

Hi Sagnik.

the FASTA sequence ids are stored in the chrName.txt file in the genome directory. You can add new genome sequences on-the-fly at the mapping stage by specifying --genomeFastaFiles but you cannot replace/delete the old genome sequences.

Cheers Alex

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