Alternatives and similar repositories for DeepNovo-DIA:

Users that are interested in DeepNovo-DIA are comparing it to the libraries listed below

• lkytal / PepNet
  The state of the art Deep CNN neural network for de novo sequencing of tandem mass spectra
  ☆34Updated 2 months ago
• jessegmeyerlab / proteomics-tutorial
  ☆56Updated 8 months ago
• MSGFPlus / msgfplus
  MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence …
  ☆78Updated 9 months ago
• kentsisresearchgroup / UltraQuant
  MaxQuant with snakemake and singularity workflow for open and scalable mass spectrometry data analysis on Linux computing clusters
  ☆26Updated 6 years ago
• dnusinow / cRomppass
  Score an Affinity Purification Mass Spectrometry Proteomics Experiment for Interactor Confidence
  ☆10Updated 9 years ago
• compomics / denovogui
  Graphical user interface for de novo sequencing of tandem mass spectra
  ☆14Updated 10 months ago
• denisbeslic / denovopipeline
  Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.
  ☆38Updated 10 months ago
• wenbostar / PDV
  PDV: an integrative proteomics data viewer
  ☆44Updated this week
• pFindStudio / pFind3
  ☆26Updated 3 weeks ago
• bigbio / quantms
  Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…
  ☆34Updated this week
• pwilmart / TMT_analysis_examples
  Examples of TMT data analyses using R. Links to notebooks and repositories. Also a few spectral counting analyses.
  ☆21Updated 2 years ago
• nf-core / mhcquant
  Identify and quantify MHC eluted peptides from mass spectrometry raw data
  ☆33Updated this week
• IFIproteomics / LFQbench
  ☆24Updated last year
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆45Updated this week
• compomics / DeepLC
  DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
  ☆58Updated last month
• MonashProteomics / FragPipe-Analyst
  ☆16Updated 3 weeks ago
• MannLabs / alphamap
  An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
  ☆78Updated last week
• bigbio / proteomics-sample-metadata
  The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
  ☆80Updated 3 months ago
• tidymass / tidymass
  tidymass
  ☆54Updated last year
• verilylifesciences / deepmass
  DeepMass is a suite of tools to enable mass spectrometry data analysis using modern machine learning techniques.
  ☆47Updated 3 years ago
• compomics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆40Updated this week
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆43Updated last month
• MannLabs / ProteomicsVisualization
  This is a collection of minimal code to visualize various aspects of proteomics data.
  ☆71Updated 3 years ago
• pwilmart / PAW_pipeline
  A Comet-based, best practices proteomics pipeline.
  ☆35Updated 9 months ago
• compomics / peptide-shaker
  Interpretation of proteomics identification results
  ☆48Updated 3 weeks ago
• ftwkoopmans / msdap
  MS-DAP: downstream analysis pipeline for quantitative proteomics
  ☆32Updated 3 months ago
• MannLabs / alphabase
  Infrastructure of AlphaX ecosystem
  ☆33Updated this week
• lmsac / DeepDIA
  Using deep learning to generate in silico spectral libraries for data-independent acquisition analysis.
  ☆41Updated 2 years ago
• saezlab / cosmosR
  COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data…
  ☆59Updated 5 months ago
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆37Updated 2 weeks ago