Bug#993273: ITP: virify -- finds viruses in metagenomic and metatranscriptomic data
Package: wnpp
Severity: wishlist
Subject: ITP: virify -- finds viruses in metagenomic and metatranscriptomic data
Package: wnpp
Owner: Steffen Moeller <moeller@debian.org>
Severity: wishlist
* Package name : virify
Version : 0.3.0
Upstream Author : Martín Beracochea <mbc@ebi.ac.uk>
* URL : https://github.com/EBI-Metagenomics/emg-viral-pipeline
* License : Apache-2.0
Programming Lang: Python
Description : finds viruses in metagenomic and metatranscriptomic data
This pipeline is run when there is an interest in finding viruses in
a sample but one does not really know what to look for. The sequences
provides all RNA sequences or all DNA sequences that it could find,
likely somehow helped biochemically to increase chances to find the
viral DNA/RNA, not the host's DNA/RNA, but any such enrichment is
not ultimately required. Just sequence more, aka "deeper". Once this
analysis is run, one will likely define PCR tests for the virus(es)
identified.
.
VIRify is a recently developed pipeline for the detection, annotation,
and taxonomic classification of viral contigs in metagenomic and
metatranscriptomic assemblies. The pipeline is part of the repertoire of
analysis services offered by the European Bioinformatics Institute.
.
VIRify’s taxonomic classification
relies on the detection of taxon-specific profile hidden Markov models
(HMMs), built upon a set of 22,014 orthologous protein domains and
referred to as ViPhOGs.
,
The pipeline is implemented and available in CWL and Nextflow.
Remark: This package is maintained by Steffen Moeller at
https://salsa.debian.org/med-team/virify
Reply to: