Ecosyste.ms: Issues

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

GitHub / OpenBioLink/OpenBioLink issues and pull requests

#79 - Bump tqdm from 4.29.1 to 4.66.3

Pull Request - State: open - Opened by dependabot[bot] 7 months ago
Labels: dependencies

#78 - Update dbMetaEdgeDrugCentral.py

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

#77 - --qual 'lq' gives an error

Issue - State: closed - Opened by mjsduncan almost 2 years ago - 1 comment

#76 - error after updating file urls

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

#75 - updated GO annotation and open drug bank urls

Pull Request - State: closed - Opened by mjsduncan almost 2 years ago - 1 comment

#74 - File Status Monitor

Issue - State: open - Opened by nomisto over 3 years ago
Labels: enhancement

#73 - Dev

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

#72 - LONG-TERM: Integrate suitable relations from Hetionet; align with / import from PheKnowLator

Issue - State: closed - Opened by matthias-samwald over 3 years ago
Labels: enhancement, wontfix

#71 - dataset issues

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

#70 - Added sphinx documentation, evaluator, dataloader

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

#69 - added dataloader

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

#68 - Added OGB evaluator

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

#67 - Train/valid/test split

Issue - State: closed - Opened by fmellomascarenhas almost 4 years ago - 3 comments

#66 - Improving storage of graph metadata

Issue - State: open - Opened by nomisto almost 4 years ago - 3 comments
Labels: enhancement

#65 - Error while running baseline

Issue - State: closed - Opened by cwwlzh almost 4 years ago

#64 - Benchmark results

Issue - State: open - Opened by fmellomascarenhas almost 4 years ago - 7 comments
Labels: enhancement

#63 - Update README.md

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

#62 - Improve edge granularity

Issue - State: open - Opened by fmellomascarenhas about 4 years ago - 5 comments
Labels: enhancement

#61 - Add OpenBioLink to Benchmarking GNNs?

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

#60 - Create a smaller dataset for quick testing

Issue - State: open - Opened by fmellomascarenhas about 4 years ago - 2 comments
Labels: enhancement

#59 - Add results from further evaluations

Issue - State: open - Opened by matthias-samwald about 4 years ago

#58 - Add some of the entity embeddings and graph analyses from DRKG?

Issue - State: open - Opened by matthias-samwald about 4 years ago
Labels: enhancement

#57 - Add OpenBioLink to OGB

Issue - State: closed - Opened by matthias-samwald about 4 years ago - 2 comments

#56 - Issue DisGeNet

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

#55 - Fix DOID Link

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

#54 - Pass nodes type info to the train method

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

#53 - Pass val_pos_triples & val_neg_triples to the train method

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

#52 - Problems when running HITS_AT_K metric

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

#51 - Add an example with GNN

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

#50 - Error while running baselines evaluation

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

#49 - Add benchmark to papers with code

Issue - State: closed - Opened by matthias-samwald over 4 years ago - 5 comments

#47 - Host benchmark files on Zenodo

Issue - State: closed - Opened by matthias-samwald over 4 years ago - 2 comments

#46 - Update BEL exporter

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

#45 - Add/align OpenBioLink to OGB

Issue - State: closed - Opened by matthias-samwald over 4 years ago

#44 - Error when evaluating

Issue - State: closed - Opened by nomisto over 4 years ago
Labels: bug

#42 - Problems with programmatic data download

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

#41 - Fixes

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

#39 - Reviewer changes

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

#38 - If statement is followed by two else statements

Issue - State: closed - Opened by nomisto over 4 years ago
Labels: bug

#37 - "'a' must be greater than 0 unless no samples are taken"

Issue - State: closed - Opened by nomisto over 4 years ago
Labels: bug

#36 - Train-test split without including the negative samples

Issue - State: closed - Opened by nomisto over 4 years ago

#35 - on_closing not defined

Issue - State: closed - Opened by nomisto over 4 years ago
Labels: bug

#34 - Dead links

Issue - State: closed - Opened by nomisto over 4 years ago - 4 comments
Labels: bug

#32 - Add BEL graph writer

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

#31 - Source added to split, sorting of graph, change in crossfold, bug fixes

Pull Request - State: closed - Opened by nomisto almost 5 years ago - 1 comment

#30 - Refactor graph writers

Pull Request - State: closed - Opened by cthoyt almost 5 years ago - 1 comment

#29 - Add BEL graph writer

Issue - State: closed - Opened by cthoyt almost 5 years ago

#28 - Reorganize CLI

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

#27 - Update code style using `black` (redo)

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

#26 - Update code style using `black`

Pull Request - State: closed - Opened by cthoyt almost 5 years ago - 2 comments

#25 - CLI is confusing

Issue - State: closed - Opened by cthoyt almost 5 years ago - 1 comment

#24 - Issues with creation of graph

Issue - State: closed - Opened by cthoyt almost 5 years ago - 1 comment

#23 - Issue4

Pull Request - State: closed - Opened by nomisto almost 5 years ago - 7 comments

#22 - Questions about edges in graphs

Issue - State: closed - Opened by sarahbeenie almost 5 years ago - 1 comment

#21 - Default and custom graph statistics

Issue - State: closed - Opened by sarahbeenie almost 5 years ago

#20 - Add entry points to setup.py

Pull Request - State: closed - Opened by cthoyt almost 5 years ago - 2 comments

#19 - Corrupted CSV in file DB_HPO_disease_phenotype.csv

Issue - State: closed - Opened by nomisto almost 5 years ago - 1 comment

#18 - Creating custom graph

Issue - State: closed - Opened by sarahbeenie almost 5 years ago - 4 comments

#17 - Importfix

Pull Request - State: closed - Opened by annabreit almost 5 years ago - 2 comments

#16 - Bug creating KG

Issue - State: closed - Opened by ddomingof almost 5 years ago - 7 comments

#14 - Add documentation of current capabilities for doing time-slices

Issue - State: closed - Opened by matthias-samwald almost 5 years ago - 2 comments

#13 - Describe negative sample generation functionality in Readme

Issue - State: closed - Opened by matthias-samwald almost 5 years ago - 1 comment

#11 - Generate further statistics on relations

Issue - State: closed - Opened by matthias-samwald almost 5 years ago

#10 - Missing discussion of previously prepared graphs in manuscript

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

#9 - Consideration of test leakage?

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

#8 - Does it make sense to combine assessment of edge prediction across all edge types?

Issue - State: closed - Opened by dhimmel almost 5 years ago - 4 comments

#7 - Questions regarding the train and testing splitting

Issue - State: closed - Opened by dhimmel almost 5 years ago - 4 comments

#6 - Release the OpenBioLink software under an open source license

Issue - State: closed - Opened by dhimmel almost 5 years ago - 2 comments

#5 - Consider the licenses of upstream data source

Issue - State: closed - Opened by dhimmel almost 5 years ago - 4 comments

#4 - Improve data formats for network download

Issue - State: closed - Opened by dhimmel almost 5 years ago - 7 comments

#3 - Peer review of the OpenBioLinks manuscript for Bioinformatics

Issue - State: closed - Opened by dhimmel almost 5 years ago - 3 comments

#2 - Make installable with setup.py

Issue - State: closed - Opened by cthoyt almost 5 years ago - 2 comments

#1 - Possibility of posting study mansucript as a preprint?

Issue - State: closed - Opened by dhimmel almost 5 years ago - 8 comments