Modules

Here is a list of all modules:

[detail level 123]

▼Installing Mascot Parser
Perl toolkit installation
▼C++ toolkit installation
C++ toolkit installation on Windows
C++ toolkit installation on Unix
Java toolkit installation
Python toolkit installation
C# toolkit installation
▼Getting started with Mascot Parser
Quickstart: how to open a results file
Using the toolkit from C++
Using the toolkit from Perl, Java, Python and C#
Garbage collection problems (advanced reading)
Multithreading (advanced reading)
▼Mascot results file module
Examples for the results file module
UML Class Diagram
Issues with backward compatibility for results files
Error Handling
Peptide mass fingerprint mixtures
Grouping proteins together
Unassigned peptides list
Treatment of duplicate peptides
Detecting ambiguous peptide matches
Error tolerant searches
Crosslinked search results
Using the singleHit parameter to return a single protein
Automated repeating of searches
Target-decoy searches and false discovery rate
Using Percolator scores
Caching Mascot Results
Combining multiple results files
Query-level modifications
Spectral libraries
Spectral library score threshold (advanced reading)
▼Mascot configuration files module
Configuration files
Examples for the configuration files module
Fixed values for quantitation.xml
Fixed values for crosslinking.xml
▼Mascot security and authentication module
Using the Mascot security module
Examples for the Mascot security module
▼Mascot utilities and tools module
Examples for the Mascot tools module
Spectral library Classes
▼Error handling and logging
Error Handling
Logging using ms_loggingmonitor
Examples for error handling in Mascot Parser modules
▼Quantitation analysis for Mascot Server and Distiller
Peptide and protein quantitation
Accessing Distiller Quantitation Results
Accessing Distiller Multi-file Quantitation Results
Extracting quantitation results with the Distiller toolkit
Source code for the Shapiro-Wilk W test algorithm
Examples for the Mascot Parser quantitation module
▼Classes for calculating masses of peptides and fragments.
Examples for the mass calculation module
▼Accessing a Mascot Server using HTTP
HTTP Communication to a Mascot Server
Examples for the Mascot http client module