bernardo-de-almeida / DeepSTARR
Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Drosophila melanogaster S2 cells
☆61Updated last year
Alternatives and similar repositories for DeepSTARR:
Users that are interested in DeepSTARR are comparing it to the libraries listed below
- ☆27Updated 2 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆38Updated 4 months ago
- a toolset for mining multi-dimensional features of the translatome with ribosome profiling data☆17Updated 2 months ago
- Epimap processing and analysis code repository☆33Updated 2 years ago
- code to run sei and obtain sei and sequence class predictions☆100Updated 2 years ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆74Updated 9 months ago
- Computational Optimization of DNA Activity (CODA)☆56Updated last week
- Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks☆28Updated this week
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆38Updated last year
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆71Updated last month
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated 10 months ago
- Single-cell Hi-C data analysis toolbox☆26Updated 3 years ago
- Detection and couting alternative TSS in single cells☆14Updated 11 months ago
- ☆17Updated 5 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆47Updated last week
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 2 months ago
- ☆37Updated 2 years ago
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆15Updated 2 years ago
- Single cell Nanopore sequencing data for Genotype and Phenotype☆50Updated this week
- A method for analyzing scATAC-seq experiments.☆30Updated last month
- Saluki, a method to predict mRNA half-lives from sequence☆22Updated 2 years ago
- PyTorch implementation of Basenji2.☆15Updated last month
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆35Updated last week
- deep learning-inspired explainable sequence model for transcription initiation☆93Updated last month
- Molecular interactions inference from single-cell multi-omics data☆22Updated 5 months ago
- ☆38Updated 7 months ago
- snakemake pipeline for Hi-C post-processing☆22Updated 9 months ago
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated last week
- ☆19Updated 7 months ago
- Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).☆52Updated 3 years ago