Quantitation analysis for Mascot Server and Distiller

Modules
	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
class	ms_customquantitation
	Peptide and protein quantitation using custom peptide ratios and protein-peptide mappings. More...
class	ms_distiller_data
	Distiller project parameters. More...
class	ms_distiller_data_quant
	The details of a Distiller search. More...
class	ms_distiller_data_search
	The details of a Distiller search. More...
class	ms_distiller_master_project
	Data for a Distiller master project, includes a list of the subprojects. More...
class	ms_distiller_master_search
	The details of a Distiller multifile search. More...
class	ms_distiller_search_status
	A Mascot search status from a Distiller project file. More...
class	ms_distiller_search_status_list
	A list of Mascot search status values, typically stored in a Distiller project file. More...
class	ms_distiller_sub_project
	The details of a Distiller multifile subproject. More...
class	ms_distiller_subsearch
	The details of a Distiller multifile subsearch. More...
class	ms_fitexy_result
	Parameters and results from least squares fit with errors in both co-ordinates. More...
class	ms_ms1quant_average_results
	Results specific to an 'average' type quantitation method. More...
class	ms_ms1quant_charge_state
	A result from a charge state calculation. More...
class	ms_ms1quant_match
	A peptide that has been matched, in quantitation, to a protein hit. More...
class	ms_ms1quant_match_component
	A component within a match. More...
class	ms_ms1quant_match_range
	A range for a component of a peptide match. More...
class	ms_ms1quant_match_ratio
	The status resulting ratio for a peptide found in a match. More...
class	ms_ms1quant_peptide_status
	An individual peptide's quantitation status. More...
class	ms_ms1quant_time_align
	Time alignment between multiple runs (raw files) is performed in Mascot Distiller for label free quantitation. More...
class	ms_ms1quant_time_align_limits
	Limits for m/z and retention time. More...
class	ms_ms1quantitation
	The result of quantitation calculations applied to peptide summary. More...
class	ms_ms2quantitation
	Peptide and protein quantitation in a Reporter or Multiplex Mascot results file. More...
class	ms_peptide_quant_key
	Feature key identifying a peptide ratio. More...
class	ms_peptide_quant_key_vector
	A vector of peptide quant keys. More...
class	ms_peptide_quant_ratio
	Peptide abundance in one component relative to another in a quantitation experiment. More...
class	ms_progress_info
	Contains information of the current progress of a task being performed. More...
class	ms_protein_quant_ratio
	Protein abundance in one component relative to another in a quantitation experiment, derived from a sample of peptide ratios. More...
class	ms_quant_helper
	Helper routines for peptide quantitation. More...
class	ms_quant_stats
	Mathematical and statistical routines for peptide and protein quantitation. More...
class	ms_quantitation
	Base class for peptide and protein quantitation. More...
class	ms_shapiro_wilk
	The Shapiro-Wilk W test. More...
class	ms_xic
	An eXtracted Ion Chromatogram (XIC). More...
class	ms_xic_point
	A single point from a matrix_science::ms_xic object. More...

Detailed Description

Classes for handling the quantitation configuration files are in Mascot configuration files module

The statistics modules are used for the quantitation functions in both Mascot server and Mascot Distiller.

Source code for the Shapiro-Wilk W test algorithm