wassermanlab / ExplaiNN
ExplaiNN: interpretable and transparent neural networks for genomics
☆47Updated last week
Alternatives and similar repositories for ExplaiNN:
Users that are interested in ExplaiNN are comparing it to the libraries listed below
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆38Updated 4 months ago
- code to run sei and obtain sei and sequence class predictions☆100Updated 2 years ago
- Dataloader for applying sequence models to personalized genomics☆24Updated this week
- Saluki, a method to predict mRNA half-lives from sequence☆22Updated 2 years ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆46Updated this week
- Efficient algorithms for designing orthogonal DNA sequence libraries☆11Updated 5 months ago
- ☆19Updated 7 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆71Updated last month
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 2 months ago
- Computational Optimization of DNA Activity (CODA)☆56Updated last week
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆61Updated last year
- A method for analyzing scATAC-seq experiments.☆30Updated last month
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated 10 months ago
- Molecular interactions inference from single-cell multi-omics data☆22Updated 5 months ago
- ☆27Updated 2 months ago
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆26Updated 2 years ago
- ☆17Updated 5 months ago
- PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data☆43Updated last year
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆31Updated last week
- Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks☆28Updated this week
- ☆38Updated 4 years ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆74Updated 9 months ago
- Predicting gene expression levels from genomic sequences☆52Updated 4 years ago
- a toolset for mining multi-dimensional features of the translatome with ribosome profiling data☆17Updated 2 months ago
- ☆18Updated last year
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆15Updated 2 years ago
- This repository hosts a minimal version of a Python API for BPNet.☆37Updated 3 weeks ago
- Tools for sgRNA calling in direct capture Perturb-seq data☆32Updated last year
- Toolset for training quantitative sequence to function models.☆23Updated last year
- Elucidating the Utility of Genomic Elements with Neural Nets☆68Updated 4 months ago