indralab/protmapper issues and pull requests

#45 - Update UniProt client due to new UniProt API

Pull Request - State: closed - Opened by bgyori over 1 year ago

#44 - Migrate UniProt resources to new web service

Issue - State: closed - Opened by bgyori over 1 year ago

#43 - Use legacy UniProt web service

Pull Request - State: closed - Opened by bgyori over 2 years ago

#42 - Refactor loading FASTA into two functions

Pull Request - State: closed - Opened by bgyori over 2 years ago

#41 - Replace RDF with XML in UniProt client

Pull Request - State: closed - Opened by bgyori almost 3 years ago - 1 comment

#40 - Rdflib issue on Github actions

Issue - State: closed - Opened by bgyori almost 3 years ago - 1 comment

#39 - Add lookup by MGI and RGD name

Pull Request - State: closed - Opened by cthoyt almost 3 years ago

#38 - Improve protein name extraction and compress resource files

Pull Request - State: closed - Opened by bgyori almost 3 years ago

#37 - Add citation bibtex to readme

Pull Request - State: closed - Opened by cthoyt about 3 years ago

#36 - Add Entrez mappings for non-human entries

Pull Request - State: closed - Opened by bgyori about 3 years ago

#35 - Use PyStow to locate resource directory

Pull Request - State: closed - Opened by cthoyt over 3 years ago - 7 comments

#34 - Return protein name if gene name is not available

Pull Request - State: closed - Opened by bgyori over 3 years ago

#33 - Better gene names and fragment features from UniProt

Pull Request - State: closed - Opened by bgyori over 3 years ago

#32 - Include taxonomy ID for each protein

Pull Request - State: closed - Opened by bgyori almost 4 years ago

#31 - Update resources

Pull Request - State: closed - Opened by bgyori almost 4 years ago

#30 - Problematic Entrez ID

Issue - State: closed - Opened by cthoyt about 4 years ago - 5 comments

#29 - Add support for Entrez mappings

Pull Request - State: closed - Opened by bgyori over 4 years ago

#28 - Add entrez identifier conversions

Issue - State: closed - Opened by cthoyt over 4 years ago - 3 comments

#27 - Add get feature of function

Pull Request - State: closed - Opened by bgyori over 4 years ago

#26 - Integrate protein post-processing features and Sars-CoV-2 entries

Pull Request - State: closed - Opened by bgyori over 4 years ago - 1 comment

#25 - Sarscov2 UP pre-release

Pull Request - State: closed - Opened by kkaris over 4 years ago - 1 comment

#24 - Add broader error handling for sequence lookups

Pull Request - State: closed - Opened by bgyori almost 5 years ago

#23 - Add smoke tests for CLI

Pull Request - State: closed - Opened by bgyori about 5 years ago

#22 - Handle isoform suffix in UniProt client

Pull Request - State: closed - Opened by bgyori about 5 years ago

#21 - Add a CLI for the protmapper

Pull Request - State: closed - Opened by bgyori about 5 years ago

#20 - Add mapping from UP ID directly to HGNC ID

Pull Request - State: closed - Opened by bgyori about 5 years ago

#19 - Fix handling multiple returned UP IDs for an HGNC ID

Pull Request - State: closed - Opened by bgyori about 5 years ago

#18 - Issue when mapping peptides to uniprot non-base isoforms

Issue - State: closed - Opened by FFroehlich about 5 years ago - 6 comments

#17 - fix map_peptide_to_human_ref typehint

Pull Request - State: closed - Opened by FFroehlich about 5 years ago - 1 comment