A python package for Personalized Proteogenomics
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') #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
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.
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