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medbioinf
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pia
:books: :microscope: PIA - Protein Inference Algorithms
https://github.com/medbioinf/pia
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added setting of visitorCid
#110
julianu
closed
6 years ago
0
updated year and added usage statistics
#109
julianu
closed
6 years ago
1
Question about the -proteinExport function
#108
cksakura
closed
6 years ago
6
fixing an issue with MSF file parsing
#107
julianu
closed
6 years ago
1
Parsing the PepXML files
#106
ypriverol
opened
6 years ago
1
Include FDR q value in command line output
#105
thinkle12
closed
6 years ago
4
Make a better choice of how the PSM sets are created
#104
julianu
closed
1 year ago
0
reversing the jMzIdentML version due to performance issues
#103
julianu
closed
6 years ago
1
Make a Knime node that creates a PIA Parameter File
#102
thinkle12
closed
1 year ago
1
Null Pointer Exception in Knime PIA analysis using mzIdentml from Comet search results
#101
thinkle12
closed
6 years ago
27
removing useless throw declarations and logging exception instead
#100
julianu
closed
6 years ago
0
updating dependencies
#99
julianu
closed
6 years ago
1
peptides are skip if PTMs can't be mapped
#98
ypriverol
closed
6 years ago
1
Neutral loss
#97
ypriverol
closed
7 years ago
1
fixing problem with PSM level q-value filtering
#96
julianu
closed
7 years ago
1
Here I have added a new test including the PRIDE pipeline.
#95
ypriverol
closed
7 years ago
1
resolving a problem with the FDR Score and no decoys or only same score
#94
julianu
closed
7 years ago
1
CHEMMOD modifications
#93
ypriverol
closed
7 years ago
1
added funding and download information
#92
julianu
closed
7 years ago
0
The test has been upgrade to include peptide FDR.
#91
ypriverol
closed
7 years ago
3
A new method to retrieve number of PSMs by Peptide By file
#90
ypriverol
closed
7 years ago
1
Some small changes
#89
ypriverol
closed
7 years ago
1
Adapting mass to charge and retention time precision
#88
julianu
closed
7 years ago
1
Fixes and deactivation of "source ID" and "spectrum title"
#87
julianu
closed
7 years ago
1
reducing logging noise
#86
julianu
closed
7 years ago
0
fixing code flaws
#85
julianu
closed
7 years ago
0
Fixing problem with mzIdentML export from idXML imports
#84
julianu
closed
7 years ago
1
fixing a bug for parsing some mzIdentML files
#83
julianu
closed
7 years ago
0
Extension of the Scoring Models and PTMs Scoring system
#82
ypriverol
closed
7 years ago
6
Updates for mzTab parsing and exporting
#81
julianu
closed
7 years ago
1
hard code the spectraTile from ms-run[]
#80
ypriverol
closed
7 years ago
1
adding encoder to the writer
#79
julianu
closed
7 years ago
1
Pull Request with new Scores for MS-GF+
#78
ypriverol
closed
7 years ago
1
Alternative sequence and modification encoding
#77
julianu
closed
1 year ago
1
updated mzTabParser
#76
julianu
closed
7 years ago
0
New example of mztab has been added.
#75
ypriverol
closed
7 years ago
0
The PIAModeller which contains all the nice functions should consume a file (or PIACompiler) instead of PIA compilation file
#74
ypriverol
opened
7 years ago
1
update of dependencies and version 1.3.0
#73
julianu
closed
7 years ago
0
update in license year
#72
julianu
closed
7 years ago
0
Fixing an error with empty searchdatabase parameters in idXML
#71
julianu
closed
7 years ago
1
fixing a problem with wrong idXML files
#70
julianu
closed
7 years ago
1
Updated mzIdentML file parser
#69
julianu
closed
7 years ago
0
updates in the idXML parser
#68
julianu
closed
7 years ago
0
improved parsing of command line arguments
#67
julianu
closed
7 years ago
0
Adding protein sequences to mzTab export (off by default)
#66
julianu
closed
7 years ago
0
mzTab: add an (optional) export of the protein sequences
#65
julianu
closed
7 years ago
1
adding mandatory best_search_engine_score[] for protein level
#64
julianu
closed
7 years ago
0
Allow filtering in idXML export
#63
julianu
closed
6 years ago
1
improve idXML file parsing for X!Tandem
#62
julianu
closed
7 years ago
0
small code improvements
#61
julianu
closed
7 years ago
0
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