MALDIquant - Quantitative Analysis of Mass Spectrometry Data
A complete analysis pipeline for matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF) and other two-dimensional mass spectrometry data. In addition to commonly used plotting and processing methods it includes distinctive features, namely baseline subtraction methods such as morphological filters (TopHat) or the statistics-sensitive non-linear iterative peak-clipping algorithm (SNIP), peak alignment using warping functions, handling of replicated measurements as well as allowing spectra with different resolutions.
Last updated 5 months ago
maldimaldi-imsmaldi-tof-msmass-spectrometry
11.19 score 63 stars 43 dependents 180 scripts 3.5k downloadscleaver - Cleavage of Polypeptide Sequences
In-silico cleavage of polypeptide sequences. The cleavage rules are taken from: http://web.expasy.org/peptide_cutter/peptidecutter_enzymes.html
Last updated 3 months ago
proteomicsbioccleavagedigestpeptides
7.46 score 12 stars 2 dependents 22 scripts 424 downloadsMALDIquantForeign - Import/Export Routines for 'MALDIquant'
Functions for reading (tab, csv, Bruker fid, Ciphergen XML, mzXML, mzML, imzML, Analyze 7.5, CDF, mMass MSD) and writing (tab, csv, mMass MSD, mzML, imzML) different file formats of mass spectrometry data into/from 'MALDIquant' objects.
Last updated 1 years ago
csvexportimportmaldimass-spectrometrymsd-filesmzml
7.26 score 10 stars 3 dependents 40 scripts 507 downloadsreadBrukerFlexData - Reads Mass Spectrometry Data in Bruker *flex Format
Reads data files acquired by Bruker Daltonics' matrix-assisted laser desorption/ionization-time-of-flight mass spectrometer of the *flex series.
Last updated 4 months ago
bruker-daltonicsimportmaldi-tof-ms
5.30 score 12 stars 5 dependents 11 scripts 594 downloadstopdownr - Investigation of Fragmentation Conditions in Top-Down Proteomics
The topdownr package allows automatic and systemic investigation of fragment conditions. It creates Thermo Orbitrap Fusion Lumos method files to test hundreds of fragmentation conditions. Additionally it provides functions to analyse and process the generated MS data and determine the best conditions to maximise overall fragment coverage.
Last updated 3 months ago
immunooncologyinfrastructureproteomicsmassspectrometrycoveragemass-spectrometrytopdown
5.26 score 1 stars 220 downloadsreadMzXmlData - Reads Mass Spectrometry Data in mzXML Format
Functions for reading mass spectrometry data in mzXML format.
Last updated 1 years ago
4.83 score 5 stars 6 dependents 15 scripts 555 downloadszlog - Z(log) Transformation for Laboratory Measurements
Transformation of laboratory measurements into z or z(log)-value based on given or empirical reference limits as proposed in Hoffmann et al. 2017 <doi:10.1515/labmed-2016-0087>.
Last updated 2 years ago
laboratory-measurementstransformationzlog
4.00 score 2 stars 128 downloads