Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / monarch-initiative/dipper issues and pull requests

#1015 - CVE-2007-4559 Patch

Pull Request - State: open - Opened by TrellixVulnTeam almost 2 years ago

#1014 - Fix STRING_DWN

Pull Request - State: open - Opened by RichardBruskiewich over 2 years ago

#1013 - Update to use clean gene tsv

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

#1012 - Switch to SSH for private repo pull

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

#1011 - Where/how can I access ChemicalSubstance associations?

Issue - State: closed - Opened by ehinderer over 3 years ago - 1 comment

#1010 - xenbase prototype

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

#1009 - Oddities with source names in QC

Issue - State: closed - Opened by kshefchek over 3 years ago

#1008 - IMPC

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

#1007 - Flybase files missing

Issue - State: open - Opened by TomConlin over 3 years ago

#1006 - Parse forward slashes in gwas catalog

Issue - State: open - Opened by kshefchek over 3 years ago - 1 comment

#1005 - ClinVar

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

#1004 - add new variant type 'haplotype, single variant'

Pull Request - State: closed - Opened by kshefchek almost 4 years ago - 1 comment

#1003 - Skip normal phenotypes in MGI

Pull Request - State: closed - Opened by kshefchek almost 4 years ago - 1 comment

#1002 - Split PATO namespaces

Pull Request - State: closed - Opened by RichardBruskiewich almost 4 years ago - 1 comment

#1000 - Fix WormBase prefix URI to Identifiers.org entry

Pull Request - State: closed - Opened by RichardBruskiewich almost 4 years ago - 1 comment

#999 - DOID -> MONDO

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

#998 - OMIA uses obsolete disease class

Issue - State: closed - Opened by cmungall almost 4 years ago - 4 comments
Labels: omia

#997 - remove pseudo-blank nodes in OMIA

Issue - State: open - Opened by cmungall almost 4 years ago
Labels: omia

#996 - mode of inhertance in OMIA

Issue - State: open - Opened by cmungall almost 4 years ago
Labels: omia

#995 - update common taxa in jenkins

Pull Request - State: closed - Opened by kshefchek almost 4 years ago - 3 comments

#994 - Fix RGD and Xenbase gene to ensembl gene equivalence

Issue - State: open - Opened by kshefchek almost 4 years ago - 2 comments

#993 - dot-qc color change

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

#992 - special handling for transcript IDs in reactome

Issue - State: open - Opened by kshefchek almost 4 years ago

#991 - change dipper cache host

Pull Request - State: closed - Opened by kshefchek almost 4 years ago - 3 comments

#990 - Go: fix list gaf list parsing

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

#989 - AnimalQTL updates

Pull Request - State: closed - Opened by TomConlin almost 4 years ago - 1 comment

#988 - change author to monarch init

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

#987 - disease phenotype clique merging

Issue - State: open - Opened by kshefchek almost 4 years ago - 1 comment

#986 - update tems&labels, add a new mouse

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

#985 - IMPC: adapt to their Version 12

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

#984 - Adendum II to PR #982 (Digest bnode ids & refactor)

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

#983 - Adendum to PR #982 (Digest bnode ids & refactor)

Pull Request - State: closed - Opened by TomConlin almost 4 years ago - 1 comment

#982 - Digest bnode ids & refactor

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

#981 - Coriell cell type term; Jenkins reorder; dublin core

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

#980 - add inverse property paths for symmetric predicates

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

#979 - Disambiguate dcat:Distribution from dcat:distribution

Pull Request - State: closed - Opened by nicholsn about 4 years ago

#977 - infer categories sparql should account for symmetry of equiv/sameAs relations

Issue - State: closed - Opened by cmungall about 4 years ago - 1 comment
Labels: bug

#976 - KEGG refactor & OMIA fix

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#975 - NCBI:

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#974 - Orphanet via Model.py discourage CURIE/URI objects as RDF literals

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#973 - remove category from G2D

Pull Request - State: closed - Opened by kshefchek about 4 years ago - 1 comment

#972 - Disease-gene mixups for biolink:categories in OMIM ingest

Issue - State: closed - Opened by kshefchek about 4 years ago - 3 comments

#971 - Eq and taxon bugs

Pull Request - State: closed - Opened by kshefchek about 4 years ago - 1 comment

#970 - omim.ttl has a broken dc:description declaration (illegal punning)

Issue - State: closed - Opened by matentzn about 4 years ago - 6 comments

#969 - omim.ttl has multiple labels on classes

Issue - State: open - Opened by matentzn about 4 years ago - 3 comments

#968 - Globally replace the 'dc:' namespace with the 'dcterms:' namespace

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#967 - Curie without reference in ucscbands

Issue - State: open - Opened by kshefchek about 4 years ago

#966 - OrphaNumber now Orphacode?

Issue - State: closed - Opened by drseb about 4 years ago - 12 comments

#965 - typo

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#964 - NCBI OMIM disease as gene fix

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#962 - Jenkinsfile & misc comment

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#961 - Diseases which are also Genes

Issue - State: closed - Opened by rgb4268 over 4 years ago - 9 comments

#960 - basic color legend on graphviz diff files

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#959 - InterPro curie for GO

Pull Request - State: closed - Opened by TomConlin about 4 years ago - 5 comments

#958 - Jenkinsfile lowercase 'Stage'

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#957 - hodge-podge

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#956 - Clinvar & incidentals

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#955 - Add biolink category association types

Issue - State: open - Opened by kshefchek about 4 years ago

#954 - omim dipper for mondo missing some classes

Issue - State: closed - Opened by cmungall about 4 years ago - 1 comment

#953 - Update rdflib to version 5

Pull Request - State: closed - Opened by kshefchek about 4 years ago - 1 comment

#952 - Get Mondo curies from ClinVar ingest

Issue - State: closed - Opened by kshefchek about 4 years ago

#951 - Some ClinVar variants mistyped as compound heterozygous

Issue - State: open - Opened by kshefchek about 4 years ago
Labels: clinvar

#950 - robot and arq pipeline to infer bl categories

Pull Request - State: closed - Opened by kshefchek about 4 years ago - 1 comment

#949 - set ontobio to 1.18.1

Pull Request - State: closed - Opened by kshefchek about 4 years ago - 1 comment

#948 - ZFINSlim standard refactor for columns

Pull Request - State: closed - Opened by TomConlin about 4 years ago

#936 - AnimalQTL BT

Issue - State: closed - Opened by TomConlin over 4 years ago - 1 comment

#934 - Orphanet

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

#929 - Emma ingest question

Issue - State: closed - Opened by matentzn over 4 years ago - 6 comments

#921 - Missing OMIMPS subClassOfs in omim ttl?

Issue - State: closed - Opened by cmungall over 4 years ago - 7 comments

#911 - FlyBase: skip derived_pheno_manifest in parsing allele phenotype association file

Pull Request - State: closed - Opened by kshefchek over 4 years ago - 2 comments

#833 - Use obo foundry unique label in ingests of species-specific resources

Issue - State: open - Opened by cmungall almost 5 years ago - 1 comment

#746 - injecting subject/object categories

Pull Request - State: closed - Opened by cmungall over 5 years ago - 22 comments

#745 - Dipper should categorize entities using biolink during ingest

Issue - State: closed - Opened by cmungall over 5 years ago - 7 comments

#601 - Add Pharos as a Source in Monarch

Issue - State: open - Opened by TudorOprea about 6 years ago
Labels: ADD-SOURCE

#569 - Fix RGD ingest

Issue - State: open - Opened by kshefchek over 6 years ago - 2 comments

#547 - Pull in drug response phenotypes and protective variants from ClinVar

Issue - State: open - Opened by kshefchek almost 7 years ago - 1 comment

#541 - odd identifier to protein showing up for NCBI gene

Issue - State: open - Opened by selewis almost 7 years ago - 7 comments
Labels: bug, human, identifiers

#519 - Gene - Variant mixups in mouse data

Issue - State: open - Opened by kshefchek about 7 years ago - 1 comment
Labels: equivalence-bug

#459 - Clinvar introduced new elements for 'CompoundHeterozygote'

Issue - State: closed - Opened by TomConlin over 7 years ago - 11 comments
Labels: parsers, test, clinvar, modeling, refactor, UPDATE-SOURCE

#454 - Temporal ordering of phenotypes in both the curated data and algorithms

Issue - State: open - Opened by jmcmurry over 7 years ago - 14 comments
Labels: R24

#439 - Update Source: ClinVar - Refine evidence/provenance metadata

Issue - State: open - Opened by mbrush over 7 years ago - 2 comments
Labels: UPDATE-SOURCE

#381 - Add links to additional top-level documentation in README

Issue - State: open - Opened by cmungall almost 8 years ago

#355 - Wrong IRI for Fanconi Renotubular Syndrome?

Issue - State: closed - Opened by jmcmurry about 8 years ago - 3 comments
Labels: identifiers

#323 - Ingest FISH-Figure links in ZFIN evidence model

Issue - State: open - Opened by mbrush over 8 years ago - 1 comment
Labels: zfin

#319 - Determine differences between ClinVar XML and tab delimited data sets

Issue - State: open - Opened by kshefchek over 8 years ago
Labels: clinvar

#269 - Merging equivalent Associations in SciGraph

Issue - State: open - Opened by mbrush over 8 years ago - 8 comments
Labels: identifiers

#242 - Refine content and use of the curie-map.yml for identifiers site-wide

Issue - State: open - Opened by jmcmurry over 8 years ago - 4 comments
Labels: identifiers

#226 - fix omia genes that (wrongly) point to ncbigene

Issue - State: open - Opened by nlwashington almost 9 years ago - 5 comments
Labels: bug, identifiers

#221 - Determine approach for categorizing models

Issue - State: closed - Opened by kshefchek almost 9 years ago - 2 comments

#102 - syntenic and homologous region

Issue - State: open - Opened by nlwashington over 9 years ago - 2 comments
Labels: modeling

#40 - :hasSubject vs RDF[subject]

Issue - State: closed - Opened by nlwashington over 9 years ago - 17 comments
Labels: question, refactor

#31 - Bring antibody model into import chain #639

Issue - State: closed - Opened by mellybelly over 9 years ago
Labels: enhancement, modeling

#30 - Bring in antibody data from MGI

Issue - State: closed - Opened by mellybelly over 9 years ago - 1 comment
Labels: data, mgi, mouse, identifiers

#23 - tests for W3C-dataset description compliance

Issue - State: closed - Opened by nlwashington over 9 years ago
Labels: enhancement, test, dataset

#22 - extend provenance/dataset descriptions

Issue - State: closed - Opened by nlwashington over 9 years ago - 9 comments
Labels: enhancement, dataset, identifiers