Ben Busby

https://github.com/smalikic/B-SCITE

@jdidion will submit a PR

PyVCF error

1

Hi folks, I've seen this error on a number of systems. Any help would be greatly appreciated! Collecting pyvcf Downloading PyVCF-0.6.8.tar.gz (34 kB) Preparing metadata (setup.py): started Preparing metadata (setup.py):...

Making this work with bioconda?

1

In addition to being cool (and downloading a bunch of stuff automatically), might expand user base? Cheers! Ben

A potential reason for short contigs

14

We may need to do an after-magicBLAST cleanup, where we extract the reads and pairs back out of the original SRA. Duplications and unpaired reads may be throwing off the...

Eventually, possibly in another hackathon, BUD should have a state dependent magicBLAST parameter modifier, where: the parameters are tightened in regions with > average # of reads (repeats are presumably...

Hi! We are going to be using this a lot in the NCBI-assisted Boston Genomics Hackathon at Brandeis on April 25-27. Could we make this work with NCBI gff3 files...