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A python package for Personalized Proteogenomics

Project description

Short description:

With pyGeno you can do that:

from pyGeno.Genome import *

#load a genome
ref = Genome(name = 'GRCh37.75')
#load a gene
gene = ref.get(Gene, name = 'TPST2')[0]
#print the sequences of all the isoforms
for prot in gene.get(Protein) :
 print prot.sequence

You can also do it for the specific genomes of your subjects:

pers = Genome(name = 'GRCh37.75', SNPs = ["RNA_S1"], SNPFilter = myFilter())

And much more: https://github.com/tariqdaouda/pyGeno

Verbose Description:

pyGeno is a python package mainly intended for personal medicine applications that revolve around genomics and proteomics. It integrates reference sequences and annotations, genomic polymorphisms from the dbSNP database and data from next-gen sequencing into an easy to use, memory- efficient and fast framework, therefore allowing the user to easily explore human’s specific genomes and proteomes. Compared to a standalone program, pyGeno gives the user access to the complete expressivity of python, a general programming language. It’s range of application therefore encompasses both short scripts and large scale genome-wide studies.

Project details


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1.3.1

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1.2.8

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1.2.7

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1.2.6

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1.2.5

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1.2.4

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1.2.3

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1.2.2

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1.2.1

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1.2.0

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1.1.7

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1.1.6

This version
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1.1.5

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1.1.4

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1.1.3

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1.1.2

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1.1.1

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Filename, size & hash SHA256 hash help File type Python version Upload date
pyGeno-1.1.5.tar.gz (10.4 MB) Copy SHA256 hash SHA256 Source None Nov 18, 2014

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