bernardo-de-almeida / DeepSTARR_embryo
Deep learning models to predict enhancers in different Drosophila embryo tissues
☆16Updated last year
Alternatives and similar repositories for DeepSTARR_embryo:
Users that are interested in DeepSTARR_embryo are comparing it to the libraries listed below
- Toolset for training quantitative sequence to function models.☆21Updated 11 months ago
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆31Updated last week
- ☆9Updated 2 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆57Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆35Updated 3 months ago
- An end-to-end computational pipeline for large Perturb-seq screens☆12Updated 2 years ago
- ☆23Updated 4 months ago
- Code for scKINETICS (ISMB 2023)☆21Updated last year
- Molecular interactions inference from single-cell multi-omics data☆22Updated 3 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆20Updated 10 months ago
- ☆42Updated 3 months ago
- Learning motif contributions to cell transitions using sequence features and graphs.☆28Updated 5 months ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆28Updated last month
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆36Updated last month
- Nextflow pipeline for cross-species integration and assessment of single cell RNA-seq datasets☆36Updated 10 months ago
- ☆17Updated 4 months ago
- Enformer Celltyping is a tensorflow, multi-headed attention based model that incorporates distal effects of Deoxyribonucleic Acid (DNA) i…☆11Updated 3 months ago
- For fine-tuning Enformer using paired WGS & gene expression data☆11Updated 3 weeks ago
- ☆16Updated 8 months ago
- ☆20Updated last year
- Single Cell Pretrained Regulatory network INference from Transcripts☆11Updated 5 months ago
- GREAT algorithm in Python☆14Updated 2 years ago
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆24Updated 2 years ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆28Updated last month
- This repository contains codes used for the human fetal limb cell atlas.☆13Updated 3 weeks ago
- Information-based dimensionality reduction☆29Updated 2 months ago
- single-cell decorrelated module networks☆20Updated 5 months ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆24Updated 4 months ago
- Tools for sgRNA calling in direct capture Perturb-seq data☆32Updated last year
- Snakemake pipeline for microexon discovery and quantification☆20Updated last month