kundajelab / basepairmodelsView external linksLinks
☆19Mar 24, 2023Updated 2 years ago
Alternatives and similar repositories for basepairmodels
Users that are interested in basepairmodels are comparing it to the libraries listed below
Sorting:
- Computational analyses of WGS, mate-pair, RNA-seq, Hi-C and Capture-C data from highly rearranged balancer chromosomes in Drosophila mela…☆10Sep 25, 2019Updated 6 years ago
- TF MOtif Discovery from Importance SCOres☆165Dec 14, 2025Updated 2 months ago
- Variational Auto Encoders for learning binding signatures of transcription factors☆14Mar 14, 2024Updated last year
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆208Feb 2, 2026Updated last week
- A framework to score and analyze variant effects genome-wide using ChromBPNet models☆16Aug 1, 2025Updated 6 months ago
- ☆16May 13, 2022Updated 3 years ago
- Simple pipeline to go from an alignment to a neutral model, using the PHAST toolkit☆11Jan 17, 2020Updated 6 years ago
- Analysis tool for NG-Capture-C, Tri-C and Tiled-C data☆10Oct 13, 2025Updated 4 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆87Sep 24, 2025Updated 4 months ago
- convert CHAIN format to PAF format☆15Dec 17, 2024Updated last year
- A package for making MuE observation models in Edward2.☆13Jun 10, 2021Updated 4 years ago
- ☆14Sep 1, 2024Updated last year
- A command-line tool for reading SAM/BAM files and converted them directly to bigwig files.☆20Jan 3, 2026Updated last month
- A tool for identifying active prophage elements through read mapping☆13Oct 9, 2023Updated 2 years ago
- ☆14Jun 14, 2019Updated 6 years ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆174Oct 10, 2025Updated 4 months ago
- This repository hosts a minimal version of a Python API for BPNet.☆55Jan 24, 2026Updated 3 weeks ago
- tutorials for spateo package☆20Dec 25, 2024Updated last year
- Fast API server for calculating linkage disequilibrium☆20Apr 24, 2025Updated 9 months ago
- A repo contains historical and updated MTEC libraries.☆18Feb 6, 2020Updated 6 years ago
- ☆11Jul 3, 2022Updated 3 years ago
- Profile HMM-based hybrid error correction algorithm for long reads☆21Aug 15, 2018Updated 7 years ago
- ☆22Jul 2, 2020Updated 5 years ago
- A self-contained repository of all code needed for SPRITE analysis☆21Jul 28, 2021Updated 4 years ago
- pythonic wrapper for htslib☆24Aug 8, 2017Updated 8 years ago
- Code relevant to sci-ATAC-seq of Drosophila embryogenesis.☆22Jun 9, 2019Updated 6 years ago
- Use an ensemble of variant callers to call variants from ATAC-seq data☆23May 14, 2025Updated 9 months ago
- Biological sequence analysis for the modern age.☆261Jan 19, 2026Updated 3 weeks ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆79Updated this week
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 2 years ago
- High-definition modeling of chromatin + transcriptomics data☆26Jan 27, 2026Updated 2 weeks ago
- ☆29Aug 1, 2023Updated 2 years ago
- ☆23May 8, 2023Updated 2 years ago
- Learning motif contributions to cell transitions using sequence features and graphs.☆28Aug 30, 2024Updated last year
- Elucidating the Utility of Genomic Elements with Neural Nets☆69Dec 2, 2024Updated last year
- Public releases of TARDIS☆11Feb 2, 2024Updated 2 years ago
- a broadly applicable tool for automated gene identification and retrieval☆32Dec 6, 2024Updated last year
- A python package for chromVAR☆33May 1, 2023Updated 2 years ago