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 mainly intended for personalized medicine, but it can serve many purposes. 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 reference and custom genomes and proteomes. pyGeno can be used for both short scripts and large scale genome-wide studies.