Parsnp

Parsnp is a command-line-tool for efficient microbial core genome alignment and SNP detection. Parsnp was designed to work in tandem with Gingr, a flexible platform for visualizing genome alignments and phylogenetic trees.

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Topics

DNA polymorphism Phylogenetics Structure analysis

Details

License:: BSD-3-Clause
Tool Type:: command-line tool
Operating Systems:: Mac, Linux
Programming Languages:: C++, Python
Added:: 5/27/2021
Last Updated:: 8/2/2021

Operations

Genome alignment
SNP detection

Documentation

Training material

https://harvest.readthedocs.io/en/latest/content/parsnp/tutorial.html

FAQ

https://harvest.readthedocs.io/en/latest/content/parsnp/faq.html

Quick start guide

https://harvest.readthedocs.io/en/latest/content/parsnp/quickstart.html

Links

Issue tracker

https://github.com/marbl/parsnp

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