Search results for "dist:MS VOLKENING"
MS - Namespace for mass spectrometry-related libraries
The "MS::" namespace is intended as a hub for mass spectrometry-related development in Perl. This core package includes a number of parsers for HUPO PSI standards and other common file formats, as well as core functionality for mass spectrometry and ...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::CV - interface to HUPO PSI controlled vocabularies
"MS::CV" provides a simple interface to the HUPO PSI controlled vocabularies. Currently the MS, MOD, and MI ontologies are indexed and available. The module utilizes a functional interface for speed and simplicity. It's primarily functionality is to ...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Mass - core functions for molecular mass calculations
"MS::Mass" provides a set of core functions for use in calculating and working with molecular mass values common in mass spectrometry. It is expected that more specialized libraries for mass calculations can build off of this module within the "MS::M...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader - Base class for all file parsers
"MS::Reader" is the base class from which all MS::Reader parsers are derived. It's sole purpose (currently) is to transparently handle on-disk indexes and opening of BGZF-compressed files....
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::PepInfo - utility functions for proteomics calculations
WARNING: This module is deprecated. See below. "MS::PepUtils" was a set of utility functions for common proteomics calculations. It's use has been superceded by the MS::Peptide and MS::Protein classes, which implement many of the same functions here ...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Spectrum - Base class for spectrum objects
"MS::Spectrum" is a base class for spectrum objects generated by file parsers. It defines a minimum set of methods that subclasses should provide (currently required but not enforced). Subclasses can (and should) provide additional methods depending ...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Peptide - A class representing peptide species for proteomic analysis
"MS::Peptide" is a class representing peptide species for use in proteomics analysis. It provides methods for building specific isoforms and querying common information....
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Protein - A class representing protein species for proteomic analysis
MS::Protein is a class representing protein species for use in proteomics analysis. It inherits from the MS::Peptide class. It is intended to hold methods more likely to be useful for complete protein sequences, but this distinction is entirely seman...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Search::DB - A class to facilitate construction of MS/MS protein search databases
"MS::Search::DB" is intended to facilitate easy construction of MS/MS protein search databases from various sources. It includes methods for fetching protein sequence data, adding common contaminant sequences, adding decoy sequences, and saving the d...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::XML - Base class for XML-based parsers
"MS::Reader::XML" is the base class for XML-based parsers in the package. The class and its methods are not generally called directly, but publicly available methods are documented below....
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::MSn - A simple but complete MS1/MS2 parser
"MS::Reader::MSn" is a parser for the MS1/MS2 formats for raw mass spectrometry data. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. Convenience methods are provided for accessin...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::MGF - A simple but complete MGF parser
"MS::Reader::MGF" is a parser for the MGF format for raw mass spectrometry data. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. Convenience methods are provided for accessing com...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::ImzML - A simple but complete imzML parser
"MS::Reader::ImzML" is a parser for the standard imzML format for raw imaging mass spectrometry data. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. "MS::Reader::ImzML" provides ...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::MzML - A simple but complete mzML parser
"MS::Reader::MzML" is a parser for the HUPO PSI standard mzML format for raw mass spectrometry data. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. Convenience methods are provid...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::MzXML - A simple but complete mzXML parser
"MS::Reader::MzXML" is a parser for the mzXML format for raw mass spectrometry data. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. Convenience methods are provided for accessing...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::PepXML - A simple but complete pepXML parser
"MS::Reader::PepXML" is a parser for the pepXML file format for spectral search results. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. Convenience methods are provided for acces...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::ProtXML - A simple but complete protXML parser
"MS::Reader::ProtXML" is a parser for the protXML format for storing protein identification in mass spectrometry....
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::XML::CV - Base class for XML-based parsers with support for referenceableParamGroups
"MS::Reader::XML::CV" is the base class for XML-based parsers which utilize referenceableParamGroups. The class and its methods are not generally called directly, but publicly available methods are documented below....
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::MzQuantML - A simple but complete mzQuantML parser
"MS::Reader::MzQuantML" is a parser for the HUPO PSI standard mzQuantML format for mass spectrometry quantification data. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. NOTE: Whi...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC
MS::Reader::MzIdentML - A simple but complete mzIdentML parser
"MS::Reader::MzIdentML" is a parser for the HUPO PSI standard mzIdentML format for mass spectrometry search results. It aims to provide complete access to the data contents while not being overburdened by detailed class infrastructure. Convenience me...
VOLKENING/MS-0.207003 - 23 Oct 2023 04:40:32 UTC