XPost: linux.debian.devel
Package: wnpp
Severity: wishlist
Owner: Steffen Moeller <
[email protected]>
X-Debbugs-Cc:
[email protected],
[email protected]
* Package name : pvactools
Version : 5.4.3
* URL :
https://github.com/griffithlab/pVACtools
* License : BSD
Programming Lang: Python
Description : cancer immunotherapy suite
This package aims at supporting the immune system to recognize tumor
tissue as foreign. The basic idea is to learn from DNA sequencing about
differences that the tumor has in its protein sequences. And if the patient is
likely to recognize such linear fragments as forein if pushed a bit, then can
possibly start to think about vaccinating with these fragments.
.
pVACtools is a cancer immunotherapy suite consisting of the
following tools:
.
pVACseq: A cancer immunotherapy pipeline for identifying and
prioritizing neoantigens from a VCF file.
.
pVACbind: A cancer immunotherapy pipeline for identifying and
prioritizing neoantigens from a FASTA file.
.
pVACfuse: A tool for detecting neoantigens resulting from gene fusions.
.
pVACsplice: A tool for detecting neoantigens resulting from splice
site variants.
.
pVACvector: A tool designed to aid specifically in the construction of
DNA vector-based cancer vaccines.
.
pVACview: An application based on R Shiny that assists users in
reviewing, exploring and prioritizing neoantigens from the results of
pVACtools processes for personalized cancer vaccine design.
I am not ultimately confident that this package will every surface in
Debian, let alone since with its 1.8 GB it is rather massive. But there are
a series of dependencies that Debian should offer to its biomedical
research community that I want to see in our distribution:
python3-mhcflurry,
python3-mhcnuggets,
python3-polars,
python3-simanneal,
python3-varcode,
python3-vaxrank,
python3-vcfpy
All these packages shall eventually appear on the Debian Med salsa
repository.
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