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Search results for mass spectrometry
mass-spectrometry
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181 search results found
Openms
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438
The codebase of the OpenMS project
Sage
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173
Proteomics search & quantification so fast that it feels like magic
Xcms
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160
This is the git repository matching the Bioconductor package xcms: LC/MS and GC/MS Data Analysis
Matchms
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153
Python library for processing (tandem) mass spectrometry data and for computing spectral similarities.
Pymzml
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151
pymzML - an interface between Python and mzML Mass spectrometry Files
Fragpipe
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149
A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data
Alphapept
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136
A modular, python-based framework for mass spectrometry. Powered by nbdev.
Msnbase
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115
Base Classes and Functions for Mass Spectrometry and Proteomics
Spectrum_utils
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114
Python package for efficient mass spectrometry data processing and visualization
Philosopher
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104
A complete toolkit for shotgun proteomics data analysis
Msfragger
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83
Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
Elmaven
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80
LC-MS data processing tool for large-scale metabolomics experiments.
Openchrom
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72
Visualization and Analysis of mass spectrometric and chromatographic data.
Rforproteomics
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69
Using R and Bioconductor packages for the analysis and comprehension of proteomics data.
Deepnovo
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67
Protein Identification with Deep Learning
Alphamap
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66
An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
Sirius
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66
SIRIUS is a software for discovering a landscape of de-novo identification of metabolites using tandem mass spectrometry. This repository contains the code of the SIRIUS Software (GUI and CLI)
Alphatims
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58
An open-source Python package for efficient accession and visualization of Bruker TimsTOF raw data from the Mann Labs at the Max Planck Institute of Biochemistry.
Massbank Data
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57
Official repository of open data MassBank records
Maldiquant
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56
Quantitative Analysis of Mass Spectrometry Data
Patroon
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52
Workflow solutions for mass-spectrometry based non-target analysis.
Protti
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50
Picotti lab data analysis package.
Spec2vec
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50
Word2Vec based similarity measure of mass spectrometry data.
Rawrr
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48
Computational analysis of raw-formatted mass spectrometry data in R. Brings your Orbitrap data to life!
Depthcharge
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47
A deep learning toolkit for mass spectrometry
Sirius Libs
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45
sirius-libs - Metabolomics mass spectrometry framework for molecular formula identification of small molecules written in Java
Pymsfilereader
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45
Thermo MSFileReader Python bindings
Corems
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42
CoreMS is a comprehensive mass spectrometry software framework
Mzkit
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42
Data toolkits for processing NMR, MALDI MSI, MALDI single cell, Raman Spectroscopy, LC-MS and GC-MS raw data, chemoinformatics data analysis and data visualization.
Gnps_workflows
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41
Public Workflows at GNPS
Ursgal
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37
Ursgal - universal Python module combining common bottom-up proteomics tools for large-scale analysis
Alphapeptstats
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37
Python Package for the downstream analysis of mass-spectrometry-based proteomics data
Tidyms
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36
TidyMS: Tools for working with MS data in untargeted metabolomics
Pmartr
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34
The pmartR R package provides functionality for quality control, normalization, exploratory data analysis, and statistical analysis of mass spectrometry (MS) omics data, in particular proteomic (either at the peptide or the protein level), lipidomic, and metabolomic data.
Proteomicsml
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33
Community-curated tutorials and datasets for ML in proteomics
Rawdiag
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33
Brings Orbitrap Mass Spectrometry Data to Life; Multi-platform, Fast and Colorful R package.
Thermo Raw File Reader
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31
.NET DLL wrapper for reading Thermo .Raw files. Uses ThermoFisher.CommonCore NuGet packages provided by Thermo Fisher Scientific
Moff
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31
A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file
Smartpeak
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30
Fast and Accurate CE-, GC- and LC-MS(/MS) Data Processing
Spectra
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29
Low level infrastructure to handle MS spectra
Mhcquant
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28
Identify and quantify MHC eluted peptides from mass spectrometry raw data
Qcxms
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28
Quantum mechanic mass spectrometry calculation program
Lfq Analyst
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27
The repo for LFQ-Analyst
Pyqms
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26
pyQms, generalized, fast and accurate mass spectrometry data quantification
Batmass
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26
Mass spectrometry data visualization
Metgem
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26
Calculation and visualization of molecular networks based on t-SNE algorithm
Informed Proteomics
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25
Top down / bottom up, MS/MS analysis tool for DDA and DIA mass spectrometry data
Glypy
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25
Glycan Analysis and Glycoinformatics Library for Python
Ms_deisotope
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25
A library for deisotoping and charge state deconvolution of complex mass spectra
Psi Ms Cv
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25
HUPO-PSI mass spectrometry CV
Pyprophet
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25
PyProphet: Semi-supervised learning and scoring of OpenSWATH results.
Ili
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25
Web-based software for visualization of molecular maps in 2D and 3D
Alphaviz
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24
AlphaViz is a cutting-edge browser-based interactive visualization tool allowing to visualize the processed mass spectrometry data acquired with Bruker instrument.
Pychron
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24
Data acquisition and processing framework for Ar-Ar geochronology and noble gas mass spectrometry
Mzlib
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23
Library for mass spectrometry projects
Mzqc
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22
Reporting and exchange format for mass spectrometry quality control data
Isocor
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21
IsoCor: Isotope Correction for mass spectrometry labeling experiments
Predfull
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21
This work was published on Analytical Chemistry: Full-Spectrum Prediction of Peptides Tandem Mass Spectra using Deep Neural Network
Tools Metabolomics
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21
Galaxy tools for metabolomics maintained by Workflow4Metabolomics
Maw
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21
Metabolome Annotation Workflow
Idbacapp
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20
A MALDI Mass Spectrometry Bioinformatics Platform
Alphabase
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20
Infrastructure of AlphaX ecosystem
Psm_utils
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19
Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
Qfeatures
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19
Quantitative features for mass spectrometry data
Scp
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18
Single cell proteomics data processing
Flashlfq
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18
Ultra-fast label-free quantification algorithm for mass-spectrometry proteomics
Metaboseek
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18
Interactive software to analyze and browse mass spectrometry data
Mzspeclib
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18
mzSpecLib: A standard format to exchange/distribute spectral libraries
Dlomix
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17
Python framework for Deep Learning in Proteomics
Quantms
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17
Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
Fermo
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17
Dashboard for analysis of liquid chromatography (tandem) mass spectrometry data.
Plink2
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17
pLink is a software dedicated for the analysis of chemically cross-linked proteins or protein complexes using mass spectrometry.
Ms Mint
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17
Targeted metabolomics with Python
Isotope
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17
Haskell library containing isotopic masses and relative abundances for elements from Hydrogen to Bismuth and Thorium and Uranium (excluding Technetium and promethium), i.e., all elements with naturally-occurring isotopes.
Falcon
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16
Large-scale tandem mass spectrum clustering using fast nearest neighbor searching.
Mscoreutils
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16
Core Utils for Mass Spectrometry Data
Maven
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16
Maven GUI: Metabolomics Analysis and Visualization Engine
Ms_peak_picker
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16
A small library to provide peak picking for software processing mass spectrometry data
Brainpy
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15
A Python implementation of Baffling Recursive Algorithm for Isotopic distributioN calculations
Pynist
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15
PyMassSpec extension for searching mass spectra using NIST's Mass Spectrum Search Engine.
Pypls
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15
Implementation of PLS-DA and OPLS-DA for high dimensional data, like MS in metabolomics.
Gleams
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15
GLEAMS is a Learned Embedding for Annotating Mass Spectra.
Liquid
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15
Software tool for identifying lipids in LC-MS/MS-based lipidomics data
Compounddb
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15
Creating and using (chemical) compound databases
Optimus
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15
Workflow for LC-MS feature analysis and spatial mapping
Mspurity
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15
R-package - Automated Evaluation of Precursor Ion Purity for Mass Spectrometry Based Fragmentation in Metabolomics
Envigcms
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14
GC/LC-MS data analysis for environmental science
Metax
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14
metaX: a flexible and comprehensive software for processing omics data.
Artms
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13
Analytical R Tools for Mass Spectrometry
Decontools
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13
Used to deisotope mass spectra and to detect features from mass spectrometry data using observed isotopic signatures.
Peakpanther
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12
On-instrument and post-acquisition targeted feature extraction
Buddy_metabolomics
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12
Molecular formula discovery via bottom-up MS/MS interrogation
Sdrf Pipelines
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12
A repository to convert SDRF proteomics files into pipelines config files
Galaxytools
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12
Set of Galaxy tool wrappers developed at RECETOX
Masic
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12
MASIC generates selected ion chromatograms (SICs) for all of the parent ions chosen for fragmentation in an LC-MS/MS analysis, characterizing the peak(s) in each SIC, computing peak statistics including elution time of the peak apex, peak area, and peak signal/noise. It can also extract reporter ion abundances (e.g. iTRAQ or TMT).
Pfind3
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12
Spike
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11
SPIKE a collaborative development for a FT-spectroscopy processing program.
Msftbx
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11
MS File ToolBox - tools for parsing some mass-spectrometry related file formats (mzML, mzXML, pep.xml, prot.xml, etc.)
Pepnet
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11
The state of the art Deep CNN neural network for de novo sequencing of tandem mass spectra
Pomashiny
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11
🍎 Web-based User-friendly Workflow for Metabolomics and Proteomics Data Analysis
1-100 of 181 search results
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