SISRS

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Assertion Error in get_pruned_dict

6

I've come across this error several times on my machine and on Hines. I'm using the command: `bin/sisrs sites -g 11223441 -m 4 -t 0.99 -f /path/to/SISRS_test_data > sisrs_sites_out.txt` This...

zmertens

Integrate BBMap for Subsampling Step

2

Subsampling via BBMap suite can specify total final desired bases, eliminating need to take read length into account.

BobLiterman

Try Different Mappers

1

Support the following mappers - [ ] BWA-MEM - [x] Bowtie 2 - [ ] NextGenMap - [ ] BBMap

reedacartwright

When running the SISRS program with data from 8 ape species each ~10X coverage, the specific_genome.py script fails due to insufficient memory (Run on BlueWaves cluster on 1 node, 20ppn,...

BobLiterman

It should be possible for SISRS to report which assemblers, mappers, etc. are installed and tell the user what options they can use.

reedacartwright

Relates to locus extension and paralogs

rachelss

Check for paralogs

1

rachelss

https://wurmlab.github.io/genomicscourse/2016-SIB/practicals/busco/busco_tutorial

rachelss

rachelss

rachelss