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Lythimus / PARSES

PARSES: A Pipeline for Analysis of RNA-Sequencing Exogenous Sequences, is a pipeline constructed from existing sequence analysis tools that allows the user to interrogate RNA-Sequencing experiments for possible biological contamination or the presence of exogenous sequences that may shed light on other factors influencing an organism's condition. Built upon Rake, PARSES allows data simple analysis of RNA-Sequencing data in an automated and repeatable fashion. Usability, logging, and versatility are the keynotes of this pipeline.
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ENV NT and/or WGS #33

Open Lythimus opened 13 years ago

Lythimus commented 13 years ago

Consider using ENV NT and/or WGS in addition to or as a pre-processing step to using NT.

Lythimus commented 13 years ago

The ENV-NT database does not always have taxonomical specificity but WGS does. http://biostar.stackexchange.com/questions/4922/ncbi-wgs-nt-env-nt-databases