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Pull requests: prody/ProDy

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Pull requests list

Add proper error handling for missing required fields in mmCIF parser Awaiting review Issue fix
#2198 opened Dec 15, 2025 by Copilot AI • Draft
1
@AnthonyBogetti
Fix AttributeError in calcHydrophobic from nested select() call Awaiting review Issue fix
#2197 opened Dec 15, 2025 by Copilot AI • Draft
1
@AnthonyBogetti
Fix can't pickle local object in calcHydrogenBondsTrajectory Awaiting review Issue fix
#2196 opened Dec 15, 2025 by Copilot AI • Draft
1
@AnthonyBogetti
2
Add MSA-based conservation analysis, and plotting module Awaiting review New feature
#2195 opened Dec 11, 2025 by anupam-banerjee Loading…
@AnthonyBogetti
2
A new small molecule quantifier using RDkit Awaiting review New feature
#2194 opened Dec 10, 2025 by anupam-banerjee Loading…
@AnthonyBogetti
2
Added an all new ESSA2 method into ProDy. Awaiting review New feature
#2193 opened Dec 5, 2025 by buffbyte Loading…
@AnthonyBogetti
9
Implementation of an improved AdaptiveANM Awaiting review New feature
#2191 opened Dec 3, 2025 by anupam-banerjee Loading…
@AnthonyBogetti
2
Initial implementation of constrained ANM Awaiting review New feature
#2190 opened Dec 3, 2025 by anupam-banerjee Loading…
@AnthonyBogetti
2
speed up tests Awaiting changes Issue fix
#2189 opened Dec 1, 2025 by AnthonyBogetti Loading…
@AnthonyBogetti
28
Fix for parsing CIF files with atoms to the end, like those from PyMOL Approved but tests failing Issue fix
#2183 opened Oct 31, 2025 by jamesmkrieger Loading…
@AnthonyBogetti
4
New hinge identification method Awaiting changes New feature
#2179 opened Oct 9, 2025 by stoneandbone Loading…
@AnthonyBogetti
25
Incorporating DruGUI into ProDy Awaiting changes New feature
#2171 opened Aug 21, 2025 by Cventura18 Loading…
@AnthonyBogetti
24
a more generalized solution for cif parsing Awaiting changes Issue fix
#2165 opened Aug 19, 2025 by anupam-banerjee Loading…
@AnthonyBogetti
5
Write mmcif header Awaiting review Issue fix
#2137 opened Jun 10, 2025 by jamesmkrieger Loading…
@AnthonyBogetti
3
add wwpdb ftp and http Awaiting review Issue fix
#2127 opened May 8, 2025 by jamesmkrieger Loading…
@AnthonyBogetti
1
Fix parseMMCIF and fetchPDB to get CIF files Awaiting review Issue fix
#2126 opened May 8, 2025 by jamesmkrieger Loading…
@AnthonyBogetti
4
CaviTracer tool for detecting channels, tunnels, pores Future New feature
#2018 opened Dec 18, 2024 by karolamik13 Loading…
@vbadwaj
20
add hierview numChains etc to general atomic Future
#1922 opened Jul 28, 2024 by jamesmkrieger • Draft
1
various fixes for handling ensembles with selections as ref Awaiting review
#1807 opened Dec 18, 2023 by jamesmkrieger Loading…
@AnthonyBogetti
3
WIP: Motif search Awaiting review
#1549 opened May 13, 2022 by mkonstanty • Draft
@AnthonyBogetti
13
deprecation prep Future
#1399 opened Aug 1, 2021 by jamesmkrieger • Draft
@AnthonyBogetti
7
added trajectory wrap method Future
#1344 opened Mar 11, 2021 by jamesmkrieger Loading…
31
New Hybrid Modules Future New feature
#1309 opened Feb 16, 2021 by jamesmkrieger • Draft
@AnthonyBogetti
6
charmm-gui interface Future New feature
#1226 opened Dec 22, 2020 by jamesmkrieger • Draft
1
Chain alignment fixes Future
#1220 opened Dec 21, 2020 by jamesmkrieger • Draft
1
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