This is a test version of Biostars. For the public version, visit https://www.biostars.org.
KisSplice2RefTranscriptome runtime length

Hi,

I'm currently running kissplice2reftranscriptome to predict the impact of SNPs using paired-end reads from 4 samples (8 reads files total, ~45 million bp per file, ~14 gigabytes per file). My 'mergeSNPs.tsv' file is currently ~ 25 megabytes after 24 hrs.

What length of runtime should I be expecting? KisSplice took between 3-4 days to run.

Any info would be great. I feel like I may in for the long-haul! Thanks.

kissplice kissplice2reftranscriptome snp rna-seq
• 1,641 views • link
written by TrentGenomics • TrentGenomics

1 answer

An update:

Finished writing the mainOutput.tsv after ~ 2 days. Still writing the lowQueryCoverageOutput.tsv.

• 0 views • link
written by TrentGenomics • TrentGenomics

Log in to answer this question.

More posts like this