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Pull requests: prody/ProDy

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Pull requests list

CaviTracer - refactor for enhanced accuracy and speed of channel identification to be competitive with established SOTA tools
#2249 opened Jul 16, 2026 by briza81 Loading…
22
Support atoms in showOccupancies
#2246 opened Jul 13, 2026 by Copilot AI Loading…
1
@jamesmkrieger
4
Fix writeNMD residue number overflow for large systems (>9999 residues)
#2245 opened Jul 13, 2026 by Copilot AI Loading…
1
@jamesmkrieger
2
Fix integer type mismatch in get_KDTree_indices causing RuntimeError on Windows
#2244 opened Jul 13, 2026 by Copilot AI Loading…
1
@jamesmkrieger
CaviTracer - Optimization
#2241 opened Jun 26, 2026 by MatthewLicht Loading…
7
import Bio Phylo BaseTree and _DistanceMatrix inside
#2229 opened Feb 24, 2026 by jamesmkrieger Contributor Loading…
Jamesk add LRA app again with fixed tests
#2227 opened Feb 19, 2026 by jamesmkrieger Contributor Loading…
2
Working readthedocs
#2222 opened Feb 13, 2026 by sahags Collaborator Loading…
Add torch option for linalg for NMA and transform
#2208 opened Jan 22, 2026 by jamesmkrieger Contributor • Draft
1
fixed issue with InSty multiprocessing on Windows and MacOS Issue fix
#2200 opened Jan 2, 2026 by AnthonyBogetti Member • Draft
1
@AnthonyBogetti
Fix AttributeError in calcHydrophobic from nested select() call Issue fix
#2197 opened Dec 15, 2025 by Copilot AI • Draft
1
@AnthonyBogetti
Write mmcif header Issue fix
#2137 opened Jun 10, 2025 by jamesmkrieger Contributor Loading…
@AnthonyBogetti
3
Fix parseMMCIF and fetchPDB to get CIF files Issue fix
#2126 opened May 8, 2025 by jamesmkrieger Contributor Loading…
@AnthonyBogetti
4
add hierview numChains etc to general atomic Future
#1922 opened Jul 28, 2024 by jamesmkrieger Contributor • Draft
1
various fixes for handling ensembles with selections as ref Future
#1807 opened Dec 18, 2023 by jamesmkrieger Contributor Loading…
@AnthonyBogetti
3
WIP: Motif search Future
#1549 opened May 13, 2022 by mkonstanty • Draft
@AnthonyBogetti
13
deprecation prep Future
#1399 opened Aug 1, 2021 by jamesmkrieger Contributor • Draft
@AnthonyBogetti
7
added trajectory wrap method Future
#1344 opened Mar 11, 2021 by jamesmkrieger Contributor Loading…
31
New Hybrid Modules Future
#1309 opened Feb 16, 2021 by jamesmkrieger Contributor • Draft
@AnthonyBogetti
6
charmm-gui interface Future
#1226 opened Dec 22, 2020 by jamesmkrieger Contributor • Draft
1
Chain alignment fixes Future
#1220 opened Dec 21, 2020 by jamesmkrieger Contributor • Draft
1
bug fix on color handling for showProjection Future
#1070 opened Jun 10, 2020 by jamesmkrieger Contributor • Draft
28
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