jzhoulab / puffin_manuscriptLinks
☆18Updated last year
Alternatives and similar repositories for puffin_manuscript
Users that are interested in puffin_manuscript are comparing it to the libraries listed below
Sorting:
- ☆24Updated last year
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 11 months ago
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆27Updated 2 years ago
- Analyses related to the Borzoi paper.☆22Updated last month
- ☆24Updated last month
- Saluki, a method to predict mRNA half-lives from sequence☆25Updated 3 years ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆30Updated 9 months ago
- deep learning-inspired explainable sequence model for transcription initiation☆97Updated 7 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 6 months ago
- Code for reproducing the Sei manuscript results☆17Updated 3 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆70Updated 2 years ago
- ☆18Updated last year
- ☆18Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆43Updated last month
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆35Updated 6 months ago
- polyApipe☆19Updated 8 months ago
- Predicting gene expression levels from genomic sequences☆54Updated 5 years ago
- A machine-learning algorithm to predict CTCF-mediated long-range chromatin interactions☆17Updated 6 years ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆79Updated last week
- ☆35Updated 3 years ago
- ☆80Updated 4 months ago
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆19Updated 3 months ago
- APA Regression Net - Predict and Engineer Alternative Polyadenylation☆39Updated 4 years ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph☆90Updated last year
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Updated last year
- Scripts for building computational models of gene regulation with tensorflow☆11Updated 5 years ago
- NeuronMotif: deciphering cis-regulatory codes by layerwise demixing of deep neural networks☆11Updated last year
- code to run sei and obtain sei and sequence class predictions☆109Updated 2 years ago
- Single-cell Hi-C data analysis toolbox☆27Updated 4 years ago
- Computational Optimization of DNA Activity (CODA)☆64Updated 6 months ago