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Issues list

Dataloaders for example datasets enhancement New feature or request
#13 opened Jul 25, 2020 by a-r-j updated Jul 25, 2020
Refactor granularity kwarg in protein.process_dataframe
#28 opened Dec 30, 2020 by ericmjl updated Dec 30, 2020
Pre-processing code
#49 opened Feb 9, 2021 by ericmjl updated Feb 9, 2021
Extended featurisation options enhancement New feature or request
#12 opened Jul 25, 2020 by a-r-j updated Mar 15, 2021
1 of 6 tasks
Graphein Design Doc
#19 opened Sep 13, 2020 by ericmjl updated Feb 11, 2022
4 of 7 tasks
13
YAML Configs for existing methods enhancement New feature or request good first issue Good for newcomers help wanted Extra attention is needed
#123 opened Mar 6, 2022 by a-r-j updated Mar 6, 2022
Plot distribution of 3D vectors enhancement New feature or request help wanted Extra attention is needed
#129 opened Mar 13, 2022 by a-r-j updated Mar 13, 2022
CLI support for graph transformation 'pipelines' enhancement New feature or request
#195 opened Jul 18, 2022 by kamurani updated Jul 22, 2022
2
Support for mmCIF Files enhancement New feature or request help wanted Extra attention is needed
#127 opened Mar 11, 2022 by a-r-j updated Aug 29, 2022
1
Using both local and downloaded PDBs in ML DataLoaders enhancement New feature or request help wanted Extra attention is needed
#210 opened Sep 16, 2022 by a-r-j updated Sep 16, 2022
1
Can't plot adjacency matrix of subgraph
#177 opened Jun 5, 2022 by kamurani updated Oct 11, 2022
8
ProteinGraphDataset for pairs of proteins? 1 - Priority P1 High Priority enhancement New feature or request ML
#224 opened Oct 30, 2022 by kamurani updated Nov 2, 2022
3
doc need to be updated 0 - Priority P0 Highest priority documentation Improvements or additions to documentation
#207 opened Sep 8, 2022 by 1511878618 updated Nov 2, 2022
Networkx to pyg conversion loses track or edge features
#217 opened Oct 18, 2022 by manonreau updated Nov 28, 2022
1
1
Switch to PyDSSP 2 - Priority P2 Medium priority dependencies Pull requests that update a dependency file enhancement New feature or request good first issue Good for newcomers
#243 opened Dec 3, 2022 by a-r-j updated Dec 3, 2022
Add extras flag for optional imports 1 - Priority P1 High Priority dependencies Pull requests that update a dependency file enhancement New feature or request good first issue Good for newcomers
#248 opened Dec 18, 2022 by a-r-j updated Dec 18, 2022
mesh with surface descriptors?
#251 opened Jan 11, 2023 by johnnytam100 updated Jan 11, 2023
1
Use MOL2 file in graphein.protein.graphs.construct_graph enhancement New feature or request help wanted Extra attention is needed
#259 opened Feb 1, 2023 by KevinCrp updated Feb 1, 2023
1
Protein Engineering enhancement New feature or request good first issue Good for newcomers help wanted Extra attention is needed
#252 opened Jan 24, 2023 by NAEV95 updated Feb 19, 2023
3
LMDB Support for FoldComp databases. enhancement New feature or request help wanted Extra attention is needed ML
#286 opened Mar 27, 2023 by a-r-j updated Mar 27, 2023
Support for torch 2.0 docker images dependencies Pull requests that update a dependency file
#290 opened Mar 31, 2023 by a-r-j updated Mar 31, 2023
Protein-Ligand Interaction Graphs enhancement New feature or request help wanted Extra attention is needed
#162 opened Apr 20, 2022 by a-r-j updated Aug 23, 2023
3
graphein.protein.edges.distance.add_distance_threshold should allow computing distance by "any to any" atomistic even with "residue" granularity set
#342 opened Sep 13, 2023 by kamurani updated Sep 13, 2023
[Docs] API Reference for graphein.ml is broken
#344 opened Sep 19, 2023 by kamurani updated Sep 19, 2023
ProteinGraphDataset fails if a single graph construction fails.
#345 opened Sep 20, 2023 by kamurani updated Sep 20, 2023
ProTip! Exclude everything labeled bug with -label:bug.