Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / prody/ProDy issues and pull requests
#1632 - Select app help fix
Pull Request -
State: closed - Opened by jamesmkrieger over 1 year ago
#1631 - Question about Coevolution Analysis
Issue -
State: closed - Opened by obasekigit almost 2 years ago
- 17 comments
Labels: Feature request
#1630 - add cif datafiles to setup
Pull Request -
State: closed - Opened by jamesmkrieger almost 2 years ago
#1626 - DNA Mutual Information
Issue -
State: closed - Opened by cag1343 almost 2 years ago
- 1 comment
#1625 - Biopython deprecation warning with ProDy plugin on VMD
Issue -
State: closed - Opened by cpayal almost 2 years ago
- 5 comments
#1624 - fix tests
Pull Request -
State: closed - Opened by jamesmkrieger almost 2 years ago
#1623 - Allowing setFlags to take scalar values
Pull Request -
State: closed - Opened by SHZ66 almost 2 years ago
- 9 comments
#1622 - Package data does not include newly added *.cif test files
Issue -
State: closed - Opened by merkys almost 2 years ago
- 1 comment
#1619 - store hydrogen bonds between beta-strands
Issue -
State: open - Opened by jamesmkrieger almost 2 years ago
- 1 comment
Labels: Feature request
#1619 - store hydrogen bonds between beta-strands
Issue -
State: open - Opened by jamesmkrieger almost 2 years ago
- 1 comment
Labels: Feature request
#1605 - account for PDB FTP deprecation
Issue -
State: open - Opened by jamesmkrieger almost 2 years ago
- 2 comments
#1602 - showOverlapTable problem
Issue -
State: closed - Opened by Yago52 almost 2 years ago
- 2 comments
#1599 - Error message when running Prody in VMD 1.9.4a53 Windows 10
Issue -
State: open - Opened by tanoury1 almost 2 years ago
- 2 comments
#1596 - Interpro Pfam transition
Pull Request -
State: closed - Opened by jamesmkrieger almost 2 years ago
- 2 comments
#1594 - test cases failed on Debian riscv64
Issue -
State: open - Opened by yuzibo almost 2 years ago
- 20 comments
#1592 - Question about atom selection in prody
Issue -
State: closed - Opened by obasekigit about 2 years ago
- 11 comments
#1591 - showMode(gnm[0]) problem in jupyter notebook
Issue -
State: closed - Opened by jamesmkrieger about 2 years ago
- 1 comment
#1587 - Powering down the Pfam website
Issue -
State: closed - Opened by boneta about 2 years ago
- 8 comments
#1573 - Unable to submit ProDy job from VMD even after designating path to prody.exe
Issue -
State: open - Opened by christos-efthymiou about 2 years ago
- 14 comments
#1572 - Domain Bar
Issue -
State: closed - Opened by Yago52 about 2 years ago
- 24 comments
#1557 - PCA Analysis
Issue -
State: closed - Opened by ezgisoydemir over 2 years ago
- 2 comments
#1554 - Restore SVD in some cases
Pull Request -
State: closed - Opened by jamesmkrieger over 2 years ago
#1553 - add seaborn kernel density estimation to showProjection
Issue -
State: closed - Opened by jamesmkrieger over 2 years ago
Labels: Feature request
#1549 - WIP: Motif search
Pull Request -
State: open - Opened by mkonstanty over 2 years ago
- 1 comment
#1546 - fail to import prody
Issue -
State: closed - Opened by nongbaoting over 2 years ago
- 16 comments
#1515 - Extend ClustENM kwargs for more functionality
Pull Request -
State: closed - Opened by jamesmkrieger over 2 years ago
- 4 comments
#1499 - modehunter interpolateModel
Pull Request -
State: closed - Opened by jamesmkrieger over 2 years ago
- 3 comments
#1482 - fetchPDB should check in folder for files of other formats too
Issue -
State: closed - Opened by jamesmkrieger over 2 years ago
Labels: Feature request
#1480 - cealign non-ca fix
Pull Request -
State: closed - Opened by jamesmkrieger over 2 years ago
- 5 comments
#1467 - Normal mode analysis from VMD
Issue -
State: open - Opened by Atulsingh17 over 2 years ago
- 18 comments
#1431 - NMWiz connected chains
Issue -
State: open - Opened by dim-99 almost 3 years ago
- 1 comment
Labels: Enhancement, NMWiz
#1431 - NMWiz connected chains
Issue -
State: open - Opened by dim-99 almost 3 years ago
- 1 comment
Labels: Enhancement
#1430 - Excluding contacts from flanking residues
Issue -
State: closed - Opened by paulaberry almost 3 years ago
- 3 comments
Labels: Enhancement
#1430 - Excluding contacts from flanking residues
Issue -
State: closed - Opened by paulaberry almost 3 years ago
- 3 comments
Labels: Enhancement
#1425 - Read in arbitrary coordinate set (x, y, z)
Issue -
State: closed - Opened by b2jia almost 3 years ago
- 11 comments
Labels: how-to
#1422 - Dali PCA equivalent (correspondence analysis) on aligned pdbs
Issue -
State: open - Opened by williamb009 almost 3 years ago
- 9 comments
Labels: Feature request
#1412 - Prody job submission error
Issue -
State: closed - Opened by Fredlsw almost 3 years ago
- 2 comments
#1408 - PCA Percent Contribution
Issue -
State: closed - Opened by william61001 about 3 years ago
- 16 comments
Labels: Feature request
#1406 - added gromos rmsd clustering
Pull Request -
State: closed - Opened by jamesmkrieger about 3 years ago
- 5 comments
Labels: Enhancement
#1401 - Is there a way to disable logger output in notebook?
Issue -
State: open - Opened by zllion about 3 years ago
- 10 comments
#1400 - Error of fetchPDBclusters()
Issue -
State: closed - Opened by KeiYura about 3 years ago
- 9 comments
#1399 - deprecation prep
Pull Request -
State: open - Opened by jamesmkrieger about 3 years ago
- 1 comment
#1398 - Revert "GitHub actions"
Pull Request -
State: closed - Opened by jamesmkrieger about 3 years ago
#1372 - fix up requirements
Pull Request -
State: closed - Opened by hrnciar over 3 years ago
- 7 comments
#1368 - Fixed issue in 2.0 with buildPDBEnsemble throwing error on MMBios dat…
Pull Request -
State: closed - Opened by bwingert over 3 years ago
#1346 - System size limitation in writeNMD and/or NMWiz
Issue -
State: open - Opened by cgseitz over 3 years ago
- 17 comments
#1344 - added trajectory wrap method
Pull Request -
State: open - Opened by jamesmkrieger over 3 years ago
- 8 comments
Labels: Enhancement
#1327 - pip install cannot build wheels
Issue -
State: closed - Opened by mccool-ryan over 3 years ago
- 24 comments
#1318 - sampleModes docs fix
Pull Request -
State: open - Opened by jamesmkrieger over 3 years ago
- 2 comments
#1309 - New Hybrid Modules
Pull Request -
State: open - Opened by jamesmkrieger over 3 years ago
- 6 comments
Labels: Enhancement
#1292 - New file with protein and protein-ligand interaction is added.
Pull Request -
State: closed - Opened by karolamik13 over 3 years ago
- 4 comments
Labels: Enhancement
#1226 - charmm-gui interface
Pull Request -
State: open - Opened by jamesmkrieger almost 4 years ago
- 1 comment
Labels: Enhancement
#1220 - Chain alignment fixes
Pull Request -
State: open - Opened by jamesmkrieger almost 4 years ago
- 1 comment
#1186 - add mmCIF writer and maybe others
Issue -
State: closed - Opened by jamesmkrieger almost 4 years ago
- 4 comments
Labels: Feature request
#1123 - Add interoperability with PDB REST API and chemical databases such as PubChem
Issue -
State: closed - Opened by jamesmkrieger about 4 years ago
- 7 comments
Labels: Feature request
#1116 - Need to reconcile clustering functionalities
Issue -
State: closed - Opened by jamesmkrieger about 4 years ago
- 1 comment
Labels: Enhancement
#1085 - added function printAtomicMatrix
Pull Request -
State: open - Opened by jamesmkrieger over 4 years ago
- 5 comments
#1073 - added markersizes to showProjection
Pull Request -
State: closed - Opened by jamesmkrieger over 4 years ago
#1070 - bug fix on color handling for showProjection
Pull Request -
State: open - Opened by jamesmkrieger over 4 years ago
#1055 - Integrate NMA calculations using GPU
Issue -
State: closed - Opened by jamesmkrieger over 4 years ago
Labels: Feature request
#979 - Create CODE_OF_CONDUCT.md
Pull Request -
State: closed - Opened by SHZ66 over 4 years ago
#970 - Wrapper for DruGUI/VMD
Issue -
State: closed - Opened by jamesmkrieger almost 5 years ago
Labels: Enhancement
#926 - Secondary structure monitoring in simulations
Issue -
State: closed - Opened by jamesmkrieger almost 5 years ago
- 2 comments
Labels: Feature request
#921 - Direct coupling analysis error
Issue -
State: closed - Opened by lewisr34 about 5 years ago
- 5 comments
#884 - Directions in NMWiz don't match directions from ProDy plots and overlaps
Issue -
State: closed - Opened by jamesmkrieger over 5 years ago
- 1 comment
Labels: Feature request
#827 - Revert "Revert "added calcSquareInnerProduct""
Pull Request -
State: closed - Opened by jamesmkrieger over 5 years ago
#826 - Revert "added calcSquareInnerProduct"
Pull Request -
State: closed - Opened by jamesmkrieger over 5 years ago
#703 - Add showAtomicBar
Issue -
State: closed - Opened by jamesmkrieger over 6 years ago
Labels: Feature request
#687 - Revert "pfam fixes for missing xml"
Pull Request -
State: closed - Opened by jamesmkrieger over 6 years ago
#491 - Where can I access oanm and ognm text files?
Issue -
State: closed - Opened by mayeshh over 6 years ago
- 5 comments
#448 - Revert "fixed a bug in parseCIF function"
Pull Request -
State: closed - Opened by cihankayacihan almost 7 years ago
#426 - Revert "Revert "Several fixes""
Pull Request -
State: closed - Opened by SHZ66 about 7 years ago
#425 - Revert "Several fixes"
Pull Request -
State: closed - Opened by SHZ66 about 7 years ago
#334 - Projection plot
Issue -
State: closed - Opened by natesh25 almost 8 years ago
- 2 comments
Labels: Enhancement, NMWiz
#325 - Mass weighted covariance analysis
Issue -
State: closed - Opened by Sanjoy-Paul about 8 years ago
- 1 comment
Labels: Enhancement
#243 - support for CONECT in parsePDB and writePDB
Issue -
State: closed - Opened by grinner about 9 years ago
- 3 comments
Labels: Feature request
#243 - support for CONECT in parsePDB and writePDB
Issue -
State: open - Opened by grinner about 9 years ago
- 3 comments
Labels: Feature request
#220 - Segmentation fault on ANM calculations on large systems, despite of tones of avaliable RAM
Issue -
State: closed - Opened by rmendez over 9 years ago
- 4 comments
#202 - ParseDCD: Unrecognized DCD format
Issue -
State: closed - Opened by jeeberhardt over 10 years ago
- 6 comments
#186 - NMA with EM-data using pseudoatoms
Issue -
State: closed - Opened by DavidHaselbach over 10 years ago
- 11 comments
Labels: Feature request
#172 - Hierarchical coarse graining
Issue -
State: closed - Opened by abakan-zz almost 11 years ago
- 2 comments
Labels: Feature request
#171 - New Evol subcommands
Issue -
State: closed - Opened by abakan-zz almost 11 years ago
- 1 comment
Labels: Feature request
#159 - Omit gaps in MI calculations
Issue -
State: closed - Opened by abakan-zz about 11 years ago
Labels: Feature request
#158 - Transformations with a descriptor
Issue -
State: closed - Opened by abakan-zz about 11 years ago
- 3 comments
Labels: Enhancement
#96 - Bond orders
Issue -
State: closed - Opened by abakan-zz over 12 years ago
- 2 comments
Labels: Feature request
#18 - Units
Issue -
State: closed - Opened by abakan-zz over 13 years ago
- 1 comment
Labels: Feature request