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sanjaynagi / rna-seq-pop

Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
https://sanjaynagi.github.io/rna-seq-pop/
MIT License
18 stars 7 forks source link

split the genome into freebayes jobs of roughly equal size #32

Closed sanjaynagi closed 3 years ago

sanjaynagi commented 3 years ago

In order to ensure (somewhat) even running times of variant chunks, use Travis Colliers script which splits the genome based on coverage(?) in the bam index files

https://github.com/freebayes/freebayes/issues/465#issuecomment-766878658

this may be useful when it comes to the final region to call, which can sometimes take a lot longer than others.

sanjaynagi commented 3 years ago

I misunderstood - the aforementioned script is useful when needing to run on a SLURM/SGE cluster and needing to control resources