Stampy

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Description

Stampy is a package for the mapping of short reads from illumina sequencing machines onto a reference genome. It's recommended for most workflows, including those for genomic resequencing, RNA-Seq and Chip-seq. Stampy excels in the mapping of reads containing that contain sequence variation relative to the reference, in particular for those containing insertions or deletions. It can map reads from a highly divergent species to a reference genome for instance. Stampy achieves high sensitivity and speed by using a fast hashing algorithm and a detailed statistical model.

Availability

Version 1.0.31 Version 1.0.32

Use

module add stampy-1.0.32
stampy.py --help

for more details see Documentation.

Documentation

https://www.well.ox.ac.uk/files-library/readme.txt

Licence

See chapter 12 License in the documentation

Program manager

meta@cesnet.cz

Homepage

https://www.well.ox.ac.uk/research/research-groups/lunter-group/softwares/stampy