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bcbio / bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
https://bcbio-nextgen.readthedocs.io
MIT License
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Option to add `-I -I` flag in Arriba #3018

Closed areddy965 closed 4 years ago

areddy965 commented 4 years ago

It would be great to have the option of running Arriba with the -I -I flag so that the calls have a "read_identifiers" column with the supporting read ids; it'll help with checking for alignment artifacts and to automate reconstructing the transcripts

roryk commented 4 years ago

Hi Avinash,

Thanks-- how do you do the transcript reconstruction after this step? Maybe we can automate that too?