kundajelab / dfimView external linksLinks
Deep Feature Interaction Maps (DFIM)
☆54Apr 9, 2019Updated 6 years ago
Alternatives and similar repositories for dfim
Users that are interested in dfim are comparing it to the libraries listed below
Sorting:
- Simplifies parallel processing of DNA sequencing reads☆10Feb 3, 2026Updated last week
- Accompanying repository for GkmExplain paper☆23Aug 20, 2020Updated 5 years 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
- 7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs☆13Oct 15, 2025Updated 3 months ago
- Flexible Integration of Data with Deep LEarning☆51Mar 24, 2023Updated 2 years ago
- Prediction of the 3D structure of the genome through statistically significant Hi-C contacts.☆21Aug 7, 2018Updated 7 years ago
- Sequence data label generation and ingestion into deep learning models☆12Nov 17, 2021Updated 4 years ago
- Computational biology utility scripts☆19Apr 16, 2025Updated 9 months ago
- Signed LD profile regression code☆19Aug 1, 2025Updated 6 months ago
- A toolkit to learn how to model and interpret regulatory sequence data using deep learning.☆264Aug 1, 2023Updated 2 years ago
- Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data☆34Jul 14, 2017Updated 8 years ago
- ☆21Jul 4, 2017Updated 8 years ago
- Deep learning for identifying cis-regulatory elements and other applications☆34Nov 21, 2016Updated 9 years ago
- A python library for creating simulated regulatory DNA sequences☆39Feb 22, 2023Updated 2 years ago
- Recipes for bioinformatics analyses with scikit-bio☆47Sep 8, 2025Updated 5 months ago
- CS273B Deep Learning for Genomics Course Materials☆34Sep 9, 2020Updated 5 years ago
- Deep neural networks for predicting CpG methylation☆152Sep 30, 2019Updated 6 years ago
- Repository for the code for DeepATAC project presented at WCB workshop in ICML2017☆22Aug 9, 2017Updated 8 years ago
- Automated and variant-aware CRISPR/Cas9 editing outcome predictor☆10Sep 10, 2021Updated 4 years ago
- Low-rank Highway Networks☆13Mar 11, 2016Updated 9 years ago
- ☆10Jul 22, 2020Updated 5 years ago
- A useful tool for shuffling biological sequences while preserving the k-let counts☆14Apr 23, 2024Updated last year
- ☆12Jul 25, 2019Updated 6 years ago
- A framework to score and analyze variant effects genome-wide using ChromBPNet models☆16Aug 1, 2025Updated 6 months ago
- ENNGene: an Easy Neural Network model building tool for Genomics☆11Mar 31, 2022Updated 3 years ago
- Percentile-normalization method for correcting batch effects in case-control studies☆12Oct 26, 2019Updated 6 years ago
- ☆22Jun 5, 2017Updated 8 years ago
- Simple and efficient access to genomic data for deep learning models.☆42Jan 9, 2020Updated 6 years ago
- Find nodes in hierarchical clustering that are statistically significant☆32Oct 15, 2017Updated 8 years ago
- Convolutional neural network analysis for predicting DNA sequence activity.☆267Sep 14, 2020Updated 5 years ago
- Base-pair resolution detection of transcription factor binding site by deep deconvolutional network☆10Sep 12, 2017Updated 8 years ago
- ☆11Oct 6, 2017Updated 8 years ago
- Analyse enhancer strength based on MPRA experiments.☆12Nov 12, 2020Updated 5 years ago
- kvector is a small utility for converting motifs to kmer vectors to compare motifs of different lengths☆10May 29, 2017Updated 8 years ago
- The Shape of Data: Intrinsic Distance for Comparing Data Distributions☆12Sep 25, 2019Updated 6 years ago
- Deep Motif (ICLR16)/ Deep Motif Dashboard (PSB17): Visualizing Genomic Sequence Classifications☆46Apr 19, 2019Updated 6 years ago
- Consistent Clusters for scRNA-seq☆11Oct 6, 2021Updated 4 years ago
- deepSimDEF offers single- and multi-channel deep learning models for functional analysis of genes using Gene Ontology annotations of gene…☆13May 13, 2022Updated 3 years ago
- Matlab implementation of the Elastic Principal Graphs (ElPiGraph) method☆14Dec 6, 2022Updated 3 years ago