Ecosyste.ms: Issues

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

GitHub / jonathanking/sidechainnet issues and pull requests

#68 - Doc and setup updates

Pull Request - State: closed - Opened by jonathanking 9 months ago

#67 - Issue installing

Issue - State: open - Opened by Max-Witwer 9 months ago - 2 comments

#66 - Documentation typo

Issue - State: closed - Opened by bondrewd 9 months ago - 1 comment

#65 - error value in batch

Issue - State: open - Opened by omarkhaled-28 10 months ago - 1 comment

#64 - Missing sets / resolution

Issue - State: closed - Opened by thamelry 12 months ago - 2 comments

#63 - Issue with not importing sidechainnet

Issue - State: closed - Opened by Shishir8957 12 months ago - 7 comments

#62 - SidechainNet v1.0

Pull Request - State: closed - Opened by jonathanking about 1 year ago

#61 - SidechainNet potential 1.0 update

Pull Request - State: closed - Opened by jonathanking about 1 year ago - 1 comment

#60 - Confusion Regarding train_eval and validation sets

Issue - State: closed - Opened by harshagrawal13 over 1 year ago - 2 comments

#59 - check all XYZ coords in PDBbuilder

Pull Request - State: closed - Opened by mrjoness over 1 year ago - 3 comments

#58 - Problematic structures?

Issue - State: closed - Opened by KirillShmilovich over 1 year ago - 2 comments

#57 - Sidechainnet for CASP 13 to CASP 15

Issue - State: open - Opened by harshagrawal13 over 1 year ago - 6 comments
Labels: enhancement

#56 - Can't pickle local object 'get_collate_fn.<locals>.collate_fn'

Issue - State: closed - Opened by Aditya-Tandon almost 2 years ago - 6 comments

#55 - Huggingface datasets integration?

Issue - State: open - Opened by ChenchaoZhao almost 2 years ago - 5 comments

#54 - 5.1.1 Creating a list of ProteinNet IDs - error

Issue - State: open - Opened by alpha-omega-labs about 2 years ago - 5 comments

#53 - Creation of custom sidechainnet enties for .cif files

Issue - State: open - Opened by alpha-omega-labs about 2 years ago - 4 comments

#52 - Update research_openmm branch with fastbuild.

Pull Request - State: closed - Opened by jonathanking about 2 years ago

#51 - Fix for #48.

Pull Request - State: closed - Opened by jonathanking about 2 years ago

#50 - Order of crds

Issue - State: closed - Opened by ychnh over 2 years ago - 3 comments

#49 - Interpretation of sidechainnet IDs in train split

Issue - State: closed - Opened by sidnarayanan over 2 years ago - 1 comment

#48 - error when generating pdb

Issue - State: closed - Opened by xxiexuezhi over 2 years ago - 2 comments

#47 - Are you going to release dataset for CASP-14?

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

#46 - arbitrary offsets

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

#45 - Openmm 26atom

Pull Request - State: closed - Opened by dkoes over 2 years ago - 1 comment

#44 - Generating SidechainNet angles for arbitrary PDB files

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

#43 - No build info for Glycine

Issue - State: closed - Opened by OlaRonning over 2 years ago - 1 comment

#41 - Colab create_custom walkthrough error

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

#40 - Custom dataset .load() broken

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

#39 - Create a fix for Issue #38.

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

#38 - wrong structure for 1GJJ_1_A?

Issue - State: closed - Opened by wwang2 about 3 years ago - 7 comments
Labels: bug

#37 - Structure procedence (NMR, Xray)

Issue - State: open - Opened by hypnopump about 3 years ago - 1 comment
Labels: enhancement

#36 - scn.load() error

Issue - State: open - Opened by liuxm117 over 3 years ago - 3 comments

#35 - Implement SCNDataset, SCNProtein, and HydrogenBuilder.

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

#34 - Add string sequences to Dataloader as "raw_seqs".

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

#33 - There are some repeating pids in the datasets

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

#31 - Secondry Strucutre DSSP

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

#29 - Dataset Improvements and Create Custom

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

#28 - Create custom

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

#27 - Merge Dataset improvements into Create Custom

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

#26 - Allow users to specify custom datasets.

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

#25 - Add modified residue and original sequence information to dataset. Add functionality.

Pull Request - State: closed - Opened by jonathanking over 3 years ago - 1 comment

#24 - Add commits from openmm2 that improve the dataset without adding openmm functionality

Pull Request - State: closed - Opened by jonathanking over 3 years ago - 1 comment

#23 - Fix references to sb.to_pdbstr().

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

#22 - Update openmm branch after master has been modified.

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

#21 - There are some wrong PDB IDs!!!

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

#20 - Can I obtain the features by PDB ID?

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

#19 - dRMSD Calculations & Bond Angles.

Issue - State: closed - Opened by OsamaGhandour over 3 years ago - 5 comments

#18 - Dataset issues

Issue - State: closed - Opened by hypnopump over 3 years ago - 11 comments

#17 - Add to PyPI/pip; Implement scn.create

Pull Request - State: closed - Opened by jonathanking over 3 years ago - 1 comment

#16 - Improve API and structure building methods. Discuss alpha-carbon only data.

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

#15 - Visualization

Issue - State: closed - Opened by OsamaGhandour almost 4 years ago - 12 comments

#14 - Dihedral angle for the oxygen in the carbonyl group

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

#13 - Secondary structures for validation & test sets

Issue - State: open - Opened by zlcrrrr almost 4 years ago - 2 comments
Labels: enhancement

#12 - Return resolution information when batching.

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

#11 - BatchStrucutreBuilder

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

#10 - Add secondary structure, resolution information, and namedtuples to SidechainNet.

Pull Request - State: closed - Opened by jonathanking almost 4 years ago - 1 comment
Labels: enhancement

#9 - Implement BatchStructureBuilder to build multiple structures at once.

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

#8 - PSSM + Information content

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

#7 - Visualization error

Issue - State: closed - Opened by OsamaGhandour about 4 years ago - 7 comments

#6 - Implement support for DataLoaders and various batching methods.

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

#5 - Implement scn.load for dictionaries

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

#4 - Add structure building tools.

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

#3 - Add fix for 5FXN alignment by trimming data.

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

#2 - Combine SidechainNet and ProteinNet in parallel

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

#1 - Bump psutil from 5.6.3 to 5.6.6

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies