bigbio py-pgatk issues - Githubissues

bigbio / py-pgatk

Python tools for proteogenomics analysis toolkit

Apache License 2.0

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Dev

#33 ypriverol closed 3 years ago
0
Change translation to generate all protein sequences

#32 husensofteng closed 3 years ago
0
handle the stop codons, COSMIC errors download, ENSEMBL releases

#31 ypriverol closed 3 years ago
3
Errors and tasks to be implemented

#30 ypriverol closed 3 years ago
1
Fasta input for vcf-to-proteindb

#29 OmerRonen closed 3 years ago
8
Cosmic mutations for celllines

#28 ypriverol closed 3 years ago
1
Bump cryptography from 2.6.1 to 3.2

#27 dependabot[bot] closed 3 years ago
0
replace --list_taxonomies with list_names

#26 husensofteng closed 2 years ago
2
Error from ENSEMBL URL retry

#25 ypriverol closed 3 years ago
0
NCBI GTF/GFF - support for clinvar VCF

#24 husensofteng opened 5 years ago
0
Ensembl release

#23 husensofteng closed 3 years ago
0
Add a changelog.md to the project

#22 ypriverol closed 3 years ago
0
Adding a converter for PEFF

#21 ypriverol opened 5 years ago
1
Downloading all the cBioPortal experiments failing

#20 ypriverol closed 3 years ago
7
Add the decoy Sanger tool to the library

#19 ypriverol closed 5 years ago
16
Header of the proteins for search engines

#18 ypriverol opened 5 years ago
0
overlap between config parameters in cgenomes between cosmic and cbioportal downloaders

#17 husensofteng closed 3 years ago
4
Documentation improvement

#16 ypriverol opened 5 years ago
4
Web application containing all databases and urls to be download

#15 ypriverol closed 3 years ago
0
Create a Nextflow workflow to create custom databases

#14 ypriverol closed 3 years ago
0
Major refactoring of the library to be more package oriented design

#13 ypriverol closed 5 years ago
1
move pepBedR to python.

#12 ypriverol opened 5 years ago
0
Download gnomAD variants and matching fasta

#11 husensofteng closed 5 years ago
1
VCF to proteinDB

#10 husensofteng closed 5 years ago
2
Download population variants from ENSEMBL

#9 husensofteng closed 5 years ago
11
Major review to the code

#8 ypriverol closed 3 years ago
2
Post-filter peptides

#7 husensofteng closed 3 years ago
1
GTF to DNA seq

#6 husensofteng closed 5 years ago
0
ORFs to peptides

#5 husensofteng closed 5 years ago
0
DNA seq to ORFs:

#4 husensofteng closed 5 years ago
0
Alt ORFs from protein sequences

#3 husensofteng closed 5 years ago
1
Download cancer studies from cbioportal

#2 ypriverol closed 5 years ago
0
Create / Download Canonical protein fasta file from ENSEMBL

#1 ypriverol closed 5 years ago
5