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Analyzed 1 day ago. based on code collected 2 days ago.

Commit Message	Contributor	Files Modified	Lines Added	Lines Removed	Code Location	Date
Nov 05, 2025 — Nov 05, 2026 Showing page 184 of 243 Search / Filter on:
adding @since 3.0.3 annotations	Andreas Prlic	More...				almost 15 years ago
now dependent on org.json for the RESTful Hmmer API	Andreas Prlic	More...				almost 15 years ago
Adding a new client for submitting ProteinSequences to the Hmmer3 web service and retrieving Pfam domain annotations	Andreas Prlic	More...				almost 15 years ago
updated POM and String Manipulation Test Helper (hoping not no crash the whole system)	Amr AL-HOSSARY	More...				almost 15 years ago
relaxing the default connection timeout to 15 seconds; to tolerate slow Internet connections (like mine ;) )	Amr AL-HOSSARY	More...				almost 15 years ago
replacing < and > with < and > in order not to break HTML and enable generating .CHM files using http://jan.baresovi.cz/dr/en/javadoc-chm	Amr AL-HOSSARY	More...				almost 15 years ago
Included some error catching mechanisms into NCBIQBlastService to intercept QBlast's error messages.	Sylvain Foisy	More...				almost 15 years ago
Fixing PAM250 default values	Sylvain Foisy	More...				almost 15 years ago
Major mods in NCBIQBlastAlignmentProperties: it is now responsible for basic sanity checks of these properties instead of NCBIQBlastService. Also added get/set methods for blastp matrix selection and associated gap creation/extension costs.	Sylvain Foisy	More...				almost 15 years ago
starting to refactor the CE dpAlign code	Andreas Prlic	More...				almost 15 years ago
reducing some GC overhead by allocating fewer temporary variables.	Andreas Prlic	More...				almost 15 years ago
Adjustments to getBlastFromPOsition and getBlastToPosition	Sylvain Foisy	More...				almost 15 years ago
using MEGABLAST should now work in setBlastProgram	Sylvain Foisy	More...				almost 15 years ago
added getBlastWordSize/setBlastWordSize to use WORD_SIZE values for BLAST requests	Sylvain Foisy	More...				almost 15 years ago
added getBlastExpect/setBlastExpect to use EXPECT values for BLAST requests	Sylvain Foisy	More...				almost 15 years ago
colors were switched for multi block alignments	Andreas Prlic	More...				almost 15 years ago
Added AlignmentTools.getSymmetryOrder method which tries to find symmetry in alignments.	sbliven as Spencer Bliven	More...				almost 15 years ago
[Minor] removed unused private method	sbliven as Spencer Bliven	More...				almost 15 years ago
incorporating feedback from Elmar Krieger	Andreas Prlic	More...				almost 15 years ago
Update test to reflect the new pka values	Chuan Hock Koh	More...				almost 15 years ago
Update to use unique pka values for each of the 20 Amino Acid residues for N-Terminal and C-Terminal	Chuan Hock Koh	More...				almost 15 years ago
Added the testing of NetCharge and Isoelectric Point based on pka values used by ExPASy.	Chuan Hock Koh	More...				almost 15 years ago
Added the computation of NetCharge and Isoelectric Point based on pka values used by ExPASy.	Chuan Hock Koh	More...				almost 15 years ago
Comments added for org.biojava3.aaproperties.Constraints.java	Chuan Hock Koh	More...				almost 15 years ago
fixing problem with wrongly processed multi-fragment domains	Andreas Prlic	More...				almost 15 years ago
CeCPMain version 1.3: Ignore short CPs (under 5 res).	sbliven as Spencer Bliven	More...				almost 15 years ago
setting version to 1.2	Andreas Prlic	More...				almost 15 years ago
updating context of readme file	Andreas Prlic	More...				almost 15 years ago
rename protmod to modfinder	Jianjiong Gao	More...				almost 15 years ago
Allow CECP results to display in FatCatCore format, dispite the format being unable to display CP residue numbers correctly.	sbliven as Spencer Bliven	More...				almost 15 years ago

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