ProDy 1.9 Series

Release Notes

v2.0 series come with new and improved sequence, structure, and dynamics analysis features. See release notes for details.

How to Cite

Bakan A, Meireles LM, Bahar I ProDy: Protein Dynamics Inferred from Theory and Experiments
Bioinformatics 2011 27(11):1575-1577.

Bakan A, Dutta A, Mao W, Liu Y, Chennubhotla C, Lezon TR, Bahar I Evol and ProDy for Bridging Protein Sequence Evolution and Structural Dynamics
Bioinformatics 2014 30(18):2681-2683.

ProDy 1.9 Series¶

1.9.4 (Feb 02, 2018)
1.9.3 (Oct 09, 2017)
1.9.2 (Aug 29, 2017)
1.9.1 (Aug 18, 2017)
1.9 (May 23, 2017)

1.9.4 (Feb 02, 2018)¶

Undocumented release and fixes.

1.9.3 (Oct 09, 2017)¶

Bugfixes

Bug fix about http and ftp based pdb downloads.

Bug fixes in PRS calculations.

1.9.2 (Aug 29, 2017)¶

** New Features**:

Migration to pypi.org

All repositories are moved to pypi.org

1.9.1 (Aug 18, 2017)¶

** New Features**:

PDB Secondary Structures

It is possible to write secondary structure infrmation to PDBs.

Bugfixes

Fixed the problem about clang compiler for saxs tools.

If FTP client is not working, HTTP client will be used when downloading PDBs.

1.9 (May 23, 2017)¶

New Features:

Perturbation Response Scanning

Perturbation Response Scanning method is fully implemented with new plotting tools.

Effectors and sensors are calculated from PRS tool.

Visualization with py3Dmol

In jupyter notebook, if you have installed py3Dmol you can use py3Dmol visualization directly instead of simple matplotlib visualization.

mmcif parser

Another structural format cif is also a part of ProDy parser now.

Bugfixes

Various indexing issues are fixed.

Some of the obsolete pdbs will not be downloaded anymore, instead replaced pdbs will be downloaded. This will change the priority between ftp and http servers.