search

epi2me-labs / wf-amplicon

Other
16 stars 5 forks source link

cannot find .bai in the output/SampleID/alignment Directory #4

Closed apilucky closed 9 months ago

apilucky commented 9 months ago

Ask away!

I want to take the alignment and its index file (bam and bai) out and visualize on IGV but I found only .bam in the output/alignment directory. Firstly, I think the workflow does not generate the index file by default but I found the index file under the work/alignRead directory process.
How can we place them with the corresponding bam file?

julibeg commented 9 months ago

Hi @apilucky!

Thanks for bringing this up. The newest version of the workflow (v0.3.5) now also emits the .bai files. Please give it a try and close this issue if the newest release resolved it. If not, please let us know!

apilucky commented 9 months ago

Thank you for the new update. I have done an analysis on the updated version. It is perfect. :)