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Running STAR-SEQR with only star alignment outputs

Open GACGAMA opened this issue 4 years ago • 0 comments

Hello! I've been trying to run STARSEQR with reads already aligned (with options for arriba, star-fusion and STARSEQR). When running with the following options:

starseqr.py -sb -sj -p -t 8 -g -r --v or starseqr.py -sj -sb ​-p -t 8 -g -r --v or starseqr.py -sb -p -t 8 -g -r --v I'm always getting:

starseqr.py: error: the following arguments are required: -1/--fastq1, -2/--fastq2

How can I run the fusion caller only with bam files and chimeric junctions?

GACGAMA avatar Aug 24 '21 23:08 GACGAMA