Running STAR-SEQR with star outputs
Hello everyone!
I’ve been trying to run STARSEQR with reads already aligned from STAR with specific fusion options. I want to run STAR-SEQR with aligned reads because I’m using these reads for arriba, star-fusion and STARSEQR. If I had to align them for each program, it would take very long as I have >200 samples
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
My question is: How can I run the fusion caller only with bam files output from STAR?
Any suggestions are appreciated
• 20 views
Read more here: Source link