pDeep: Predicting MS/MS Spectra of Peptides with Deep Learning
☆42Aug 22, 2019Updated 6 years ago
Alternatives and similar repositories for pDeep
Users that are interested in pDeep are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Deep (Transfer) Learning for Peptide Retention Time Prediction☆54Sep 17, 2021Updated 4 years ago
- MS/MS prediction for peptides☆24Dec 18, 2020Updated 5 years ago
- Prosit offers high quality MS2 predicted spectra for any organism and protease as well as iRT prediction. When using Prosit is helpful fo…☆91Aug 17, 2023Updated 2 years ago
- pDeepXL: MS/MS spectrum prediction for cross-linked peptide pairs by deep learning☆12Feb 8, 2021Updated 5 years ago
- pyQms, generalized, fast and accurate mass spectrometry data quantification☆28Jan 7, 2026Updated 3 months ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- This work was published on Analytical Chemistry: Full-Spectrum Prediction of Peptides Tandem Mass Spectra using Deep Neural Network☆34Aug 4, 2023Updated 2 years ago
- A Peptide Spectrum Match Scoring Algorithm based on Deep Learning Model☆10Jun 22, 2020Updated 5 years ago
- Pytorch implementation of DeepNovoV2, a state-of-the-art de novo peptide sequencing model.☆27May 21, 2019Updated 6 years ago
- Tutorials as used in the user meetings. (Please assign a git tag for the revision used for the UM)☆13May 20, 2025Updated 11 months ago
- DeepLC: Retention time prediction for peptides carrying any modification.☆75Updated this week
- MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.☆49Apr 22, 2026Updated last week
- HiCOPS: Computational framework for peptide identification from MS data through accelerated database search☆10Mar 24, 2023Updated 3 years ago
- Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.☆45Feb 23, 2024Updated 2 years ago
- fragbuilder is a tool to create, setup and analyze QM calculations on peptides.☆15Oct 31, 2014Updated 11 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Using deep learning to generate in silico spectral libraries for data-independent acquisition analysis.☆43Oct 23, 2022Updated 3 years ago
- Proteomic Data Analysis with Python (pandas, scikit-learn, numpy, scipy)☆24Jul 6, 2023Updated 2 years ago
- A modular, python-based framework for mass spectrometry. Powered by nbdev.☆187Apr 19, 2024Updated 2 years ago
- A sequence-based pan model for peptide-MHC II binding affinity prediction.☆21May 16, 2022Updated 3 years ago
- A Python package for peptide sequence analysis built around ProForma 2.1 notation. Calculate masses, generate fragments, predict isotopic…☆16Apr 14, 2026Updated 2 weeks ago
- ☆22Mar 26, 2025Updated last year
- Protein Identification with Deep Learning☆102Nov 27, 2020Updated 5 years ago
- MassDash: A web-based dashboard for streamlined DIA-MS visualization, analysis, prototyping, and optimization☆22Jan 12, 2026Updated 3 months ago
- A Bioconductor R package - Automated Evaluation of Precursor Ion Purity for Mass Spectrometry Based Fragmentation in Metabolomics☆16Mar 12, 2026Updated last month
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Utilities for downloading and managing protein FASTA files.☆14Mar 20, 2024Updated 2 years ago
- modular & open DIA search☆108Apr 14, 2026Updated 2 weeks ago
- The Git Account of LCMSMethods.org☆11Jun 1, 2019Updated 6 years ago
- MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring☆21Apr 21, 2026Updated last week
- Open-source C++ and Python module for opening binary timsTOF data files.☆50Apr 22, 2026Updated last week
- De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model☆185Updated this week
- Data files for the molecular modelling course☆13Jan 26, 2024Updated 2 years ago
- A set of metabolomics tools for use in Galaxy☆11Sep 2, 2022Updated 3 years ago
- Implementation of graph convolutional networks to predict chromatographic retention times.☆15Sep 7, 2021Updated 4 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- An open-source automated peptide synthesizer based on Arduino and Python☆13Dec 19, 2025Updated 4 months ago
- ☆42Jan 20, 2026Updated 3 months ago
- Streamlining Mass Spectrometry Data Visualization with Pandas☆23Apr 8, 2026Updated 3 weeks ago
- High quality in silico spectral library generation for data-independent acquisition proteomics☆21Mar 31, 2026Updated 3 weeks ago
- Efficiently predicting high resolution mass spectra with graph neural networks☆32Aug 3, 2023Updated 2 years ago
- Democratizing ML in proteomics☆52Mar 10, 2026Updated last month
- pathway and network analysis for metabolomics☆44Dec 8, 2025Updated 4 months ago