nh2tran / DeepNovo-DIA
De novo peptide sequencing for DDA and DIA by deep learning
☆30Updated 3 years ago
Related projects ⓘ
Alternatives and complementary repositories for DeepNovo-DIA
- Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.☆34Updated 8 months ago
- MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence …☆77Updated 7 months ago
- The state of the art Deep CNN neural network for de novo sequencing of tandem mass spectra☆32Updated 3 weeks ago
- ☆54Updated 6 months ago
- MaxQuant with snakemake and singularity workflow for open and scalable mass spectrometry data analysis on Linux computing clusters☆26Updated 6 years ago
- Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…☆34Updated last week
- DeepMass is a suite of tools to enable mass spectrometry data analysis using modern machine learning techniques.☆46Updated 3 years ago
- Examples of TMT data analyses using R. Links to notebooks and repositories. Also a few spectral counting analyses.☆21Updated 2 years ago
- DeepLC: Retention time prediction for (modified) peptides using Deep Learning.☆56Updated 3 weeks ago
- PDV: an integrative proteomics data viewer☆44Updated 6 months ago
- Using deep learning to generate in silico spectral libraries for data-independent acquisition analysis.☆41Updated 2 years ago
- MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.☆38Updated this week
- Fast and flexible semi-supervised learning for peptide detection in Python☆43Updated 2 months ago
- ☆24Updated 5 years ago
- Score an Affinity Purification Mass Spectrometry Proteomics Experiment for Interactor Confidence☆9Updated 9 years ago
- ☆24Updated last year
- The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets☆78Updated last month
- An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.☆76Updated 2 weeks ago
- A Comet-based, best practices proteomics pipeline.☆35Updated 8 months ago
- Python interface to running command-line and web-based MHC binding predictors☆89Updated last month
- Graphical user interface for de novo sequencing of tandem mass spectra☆14Updated 8 months ago
- Epitope immunogenicity prediction through in silico TCR-peptide contact potential profiling.☆23Updated last year
- An R package to calculate indices and theoretical physicochemical properties of peptides and protein sequences.☆80Updated 9 months ago
- Identify and quantify MHC eluted peptides from mass spectrometry raw data☆33Updated 3 weeks ago
- R package for functionally scoring phosphorylation sites☆19Updated 5 years ago
- GREIN : GEO RNA-seq Experiments Interactive Navigator☆48Updated 5 years ago
- Workshop illustrating mass spectrometry data analysis in R and use of the updated xcms functionality for the preprocessing of LC-MS data.☆26Updated last year
- An tandem mass spectrometry (MS/MS) sequence database search tool.☆45Updated last week
- AlphaViz is a cutting-edge browser-based interactive visualization tool allowing to visualize the processed mass spectrometry data acquir…☆30Updated 6 months ago
- MassDash: A web-based dashboard for streamlined DIA-MS visualization, analysis, prototyping, and optimization☆19Updated last week