jzhoulab / puffin_manuscriptLinks
☆17Updated 8 months ago
Alternatives and similar repositories for puffin_manuscript
Users that are interested in puffin_manuscript are comparing it to the libraries listed below
Sorting:
- ☆22Updated last year
- Saluki, a method to predict mRNA half-lives from sequence☆24Updated 2 years ago
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆16Updated 2 weeks ago
- Code for reproducing the Sei manuscript results☆17Updated 3 years ago
- ☆34Updated 2 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆63Updated 2 years ago
- Snakemake workflow for comparing E-G links to experimental data☆18Updated 3 weeks ago
- ☆18Updated last year
- ☆29Updated 4 months ago
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆26Updated 2 years ago
- This repository hosts a minimal version of a Python API for BPNet.☆44Updated this week
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆43Updated 7 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆59Updated this week
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 7 months ago
- ☆21Updated 4 months ago
- ☆54Updated this week
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 5 months ago
- Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks☆28Updated 2 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆48Updated 2 months ago
- For fine-tuning Enformer using paired WGS & gene expression data☆17Updated last month
- A supervised learning model based on Graph Neural Network to predict gene co-expression from chromatin contacts☆11Updated 2 years ago
- Weighted Nearest Neighbors Analysis implemented in Python (pyWNN)☆17Updated 3 years ago
- ☆12Updated 2 years ago
- APA Regression Net - Predict and Engineer Alternative Polyadenylation☆39Updated 3 years ago
- A deep learning approach to predicting transcription initiation from sequence at single nucleotide resolution☆12Updated 2 weeks ago
- Toolset for training quantitative sequence to function models.☆23Updated last year
- ☆10Updated 6 months ago
- Efficient algorithms for designing orthogonal DNA sequence libraries☆11Updated 8 months ago
- Repository for modeling PRO-cap data with the BPNet-like model, ProCapNet.☆15Updated last week
- ☆19Updated 2 years ago