esbgkannan / chumbyView external linksLinks
A package for making tree-based visualizations for embedding vectors
☆10Feb 6, 2023Updated 3 years ago
Alternatives and similar repositories for chumby
Users that are interested in chumby are comparing it to the libraries listed below
Sorting:
- Protein Structure Archiver☆13Sep 10, 2025Updated 5 months ago
- Wrapper tool for ancestral sequence and indel reconstruction using IQ-TREE☆11Oct 20, 2025Updated 3 months ago
- Domain-PFP is a self-supervised method to predict protein functions from the domains☆14Nov 1, 2023Updated 2 years ago
- DomainMapper is a parser for hmmscan full output files built centrally around ECOD domain definitions. Users can optimize DomainMapper's …☆13Dec 13, 2023Updated 2 years ago
- The Visualization of Protein-Ligand Graphs software that powers the PTGL☆15Apr 4, 2024Updated last year
- ☆39Jun 25, 2025Updated 7 months ago
- The aim of this repository is to provide simple tools to help those working with ColabFold BATCH both for pre and post-processing steps.☆17Jan 29, 2024Updated 2 years ago
- Notebooks to follow along with "Deep Learning for Biology" Chapters 2 to 6.☆112Jan 21, 2026Updated 3 weeks ago
- A protein structure dataset that combines 3D atomic coordinates with biophysical and evolutionary properties for every atom in every "cle…☆38Jul 25, 2024Updated last year
- a protein descriptor for site prediction☆16Aug 9, 2019Updated 6 years ago
- ☆15Jun 22, 2020Updated 5 years ago
- "Global Importance Analysis: A Method to Quantify Importance of Genomic Features in Deep Neural Networks" by Koo et al.☆13Jun 22, 2022Updated 3 years ago
- Scoring methods for predicting the DDG upon protein mutation☆16Feb 20, 2023Updated 2 years ago
- A DRAFT, early stage book on snakemake.☆22Nov 1, 2023Updated 2 years ago
- ☆19Feb 25, 2025Updated 11 months ago
- ☆76Sep 25, 2024Updated last year
- Fast protein structure searching or your money back☆118Jan 14, 2026Updated last month
- A fast, alignment-free method for estimating sequence conservation using protein sequence embedding☆17Feb 6, 2023Updated 3 years ago
- Learning Protein Constitutive Motifs from Sequence Data: RBM toolbox☆20Jan 30, 2019Updated 7 years ago
- Python package to manage protein structures and their annotations☆45Feb 22, 2024Updated last year
- ☆21Jun 24, 2022Updated 3 years ago
- Conversion of PDBx/mmCIF files to best effort/minimal PDB files☆23Nov 1, 2024Updated last year
- Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes☆23Nov 24, 2025Updated 2 months ago
- Parametric Building of de novo Functional Topologies☆44Mar 11, 2022Updated 3 years ago
- A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.☆41Jun 8, 2023Updated 2 years ago
- Contact Prediction ToolKit☆22Updated this week
- deep learning toolkit (written on top of tensorflow) to streamline computational biology analysis☆22Feb 10, 2023Updated 3 years ago
- Source code for fitting thermodynamic models (MoCHI), downstream analyses and to reproduce all figures in the following publication: Mapp…☆22Jul 20, 2023Updated 2 years ago
- Probabilistic Graphical Models in Python3.☆24Jun 4, 2025Updated 8 months ago
- ☆32Updated this week
- Protein Sequence Design with Deep Learning and Tooling like Monte Carlo Sampling and Analysis☆63Oct 28, 2025Updated 3 months ago
- Codebase for the paper Zucha et al. titled "Spatiotemporal transcriptomic map of glial cell response in mouse model of acute brain ischem…☆14Oct 23, 2024Updated last year
- Code associated with the paper 'Cracking the blackbox of deep sequence-based protein-protein interaction prediction'☆27Jan 8, 2024Updated 2 years ago
- Detect, analyze, and visualize protein symmetry☆30Dec 19, 2025Updated last month
- Protein structure datasets for machine learning.☆115Apr 22, 2025Updated 9 months ago
- ☆30Oct 20, 2023Updated 2 years ago
- Code for paired TCR data analysis from TIRTL-seq experiments☆10Nov 24, 2025Updated 2 months ago
- Automatic Retrieval and ClusTering of Interfaces in Complexes from 3D structural information☆32Jan 22, 2026Updated 3 weeks ago
- ☆13Mar 10, 2019Updated 6 years ago