kundajelab / ENCODE_downloaderView external linksLinks
Downloader for ENCODE
☆32Oct 5, 2020Updated 5 years ago
Alternatives and similar repositories for ENCODE_downloader
Users that are interested in ENCODE_downloader are comparing it to the libraries listed below
Sorting:
- Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data☆34Jul 14, 2017Updated 8 years ago
- ☆21Mar 20, 2017Updated 8 years ago
- Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…☆44Jun 9, 2021Updated 4 years ago
- For fine-tuning Enformer using paired WGS & gene expression data☆26Aug 27, 2025Updated 5 months ago
- ☆13Jan 23, 2025Updated last year
- ☆25Aug 20, 2024Updated last year
- A fast dataloader for bigwig files made for machine learning☆29Dec 16, 2025Updated 2 months ago
- A toolkit to learn how to model and interpret regulatory sequence data using deep learning.☆264Aug 1, 2023Updated 2 years ago
- Code and Data for Generative modeling for AAV design☆10Nov 13, 2023Updated 2 years ago
- MaveDB database web application☆13Nov 17, 2023Updated 2 years ago
- GREAT algorithm in Python☆14Oct 24, 2022Updated 3 years ago
- Integrate the GA4GH schemas and probably a scala impl of the service.☆14May 20, 2016Updated 9 years ago
- Sequence data label generation and ingestion into deep learning models☆12Nov 17, 2021Updated 4 years ago
- pandasGWAS: a Python package for easy retrieval of GWAS Catalog data☆17Dec 19, 2025Updated last month
- GAME was designed for the functional genomics community to create seamless communication across pre-trained models and genomics datasets.…☆19Feb 2, 2026Updated 2 weeks ago
- "Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks" by Peter K. Koo and Sean R. Eddy☆34Jan 7, 2020Updated 6 years ago
- A python library for creating simulated regulatory DNA sequences☆39Feb 22, 2023Updated 2 years ago
- TF MOtif Discovery from Importance SCOres☆165Dec 14, 2025Updated 2 months ago
- CS273B Deep Learning for Genomics Course Materials☆34Sep 9, 2020Updated 5 years ago
- Repository for modeling PRO-cap data with the BPNet-like model, ProCapNet.☆18Aug 28, 2025Updated 5 months ago
- ☆42Updated this week
- scRNAseq integration with triplet neural networks☆41Feb 2, 2026Updated 2 weeks ago
- Single-cell exploratory data analysis for RNA-Seq☆40Apr 24, 2021Updated 4 years ago
- FA2021 Bootcamp course website for the incoming cohort of the Bioinformatics & Systems Biology Ph.D. program☆19Sep 16, 2021Updated 4 years ago
- Signed LD profile regression code☆19Aug 1, 2025Updated 6 months ago
- DeepProfile framework, which learns a variational autoencoder (VAE) network from a vast quantity of publicly available gene expression sa…☆19Jun 7, 2018Updated 7 years ago
- Genomic Features in Python from BioConductor's AnnotationHub☆22Feb 9, 2026Updated last week
- Diamond2GO is a set of tools that can rapidly assign Gene Ontology (GO) terms and perform functional enrichment for large-scale functiona…☆23Feb 4, 2026Updated last week
- Container class to represent genomic locations and support genomic analysis☆27Feb 9, 2026Updated last week
- Simple and efficient access to genomic data for deep learning models.☆42Jan 9, 2020Updated 6 years ago
- Deep Feature Interaction Maps (DFIM)☆54Apr 9, 2019Updated 6 years ago
- This is the package of Yuanfang's winning algorithm in the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge☆20Jun 11, 2020Updated 5 years ago
- ☆25Sep 9, 2025Updated 5 months ago
- R-package for elastic net regularized regression with zero sum constraint☆25May 16, 2024Updated last year
- Repository for the code for DeepATAC project presented at WCB workshop in ICML2017☆22Aug 9, 2017Updated 8 years ago
- deep learning toolkit (written on top of tensorflow) to streamline computational biology analysis☆22Feb 10, 2023Updated 3 years ago
- ☆20Jul 20, 2015Updated 10 years ago
- Flexible Integration of Data with Deep LEarning☆51Mar 24, 2023Updated 2 years ago
- Yet Another Motif Discovery Algorithm☆53Jan 10, 2019Updated 7 years ago