GitHub - jpfeil/bamsurgeon: tools for adding mutations to existing .bam files, used for testing mutation callers

jpfeil / bamsurgeon Public

forked from adamewing/bamsurgeon

Notifications You must be signed in to change notification settings
Fork 0
Star 0

tools for adding mutations to existing .bam files, used for testing mutation callers

MIT license

0 stars 86 forks Branches Tags Activity

Star

Notifications

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 290 Commits
bs		bs
doc		doc
etc		etc
test		test
test_data		test_data
Dockerfile		Dockerfile
LICENSE.txt		LICENSE.txt
README		README
addindel.py		addindel.py
addsnv.py		addsnv.py
addsv.py		addsv.py

Repository files navigation

Bamsurgeon: tools for adding mutations to .bam files, used for testing mutation callers

Please see doc/Manual.pdf for instructions and contact [email protected] with questions.

Prerequisites:

samtools/wgsim/tabix (https://github.com/samtools/samtools)
bcftools (https://github.com/samtools/bcftools)
pysam >= 0.8.1 (https://github.com/pysam-developers/pysam)
bwa (http://bio-bwa.sourceforge.net/)
velvet (http://www.ebi.ac.uk/~zerbino/velvet/)
exonerate (http://www.ebi.ac.uk/~guy/exonerate/)
picard tools >= 1.128 (https://github.com/broadinstitute/picard/releases/tag/1.128)