jmschrei / tfmodisco-liteLinks
A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
☆84Updated 2 weeks ago
Alternatives and similar repositories for tfmodisco-lite
Users that are interested in tfmodisco-lite are comparing it to the libraries listed below
Sorting:
- This repository hosts a minimal version of a Python API for BPNet.☆49Updated 2 weeks ago
- deep learning-inspired explainable sequence model for transcription initiation☆97Updated 6 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆72Updated this week
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 5 months ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆78Updated last year
- code to run sei and obtain sei and sequence class predictions☆109Updated 2 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆177Updated last month
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆67Updated 2 years ago
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆91Updated 6 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆44Updated 9 months ago
- ☆32Updated 7 months ago
- Biological sequence analysis for the modern age.☆248Updated this week
- TF MOtif Discovery from Importance SCOres☆146Updated last year
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated 9 months ago
- Machine learning methods for DNA sequence analysis.☆54Updated 2 weeks ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 10 months ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated last year
- scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.☆32Updated last month
- ☆24Updated last year
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 7 months ago
- Predicting gene expression levels from genomic sequences☆54Updated 5 years ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆163Updated last year
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆46Updated this week
- Codebase for the domain adaptation (cross-species TF binding prediction) project.☆12Updated 3 years ago
- predicting expression effects of human genome variants ab initio from sequence☆132Updated 7 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆88Updated 11 months ago
- Fast-ish (and correct!) quantile normalization in Python.☆31Updated 3 months ago
- Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …☆51Updated 3 months ago
- ☆41Updated last month
- Saluki, a method to predict mRNA half-lives from sequence☆25Updated 2 years ago