chengl7-lab / kmap
A tool for visualising kmers in 2D space.
☆8Updated last month
Alternatives and similar repositories for kmap:
Users that are interested in kmap are comparing it to the libraries listed below
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆42Updated this week
- Saluki, a method to predict mRNA half-lives from sequence☆22Updated 2 years ago
- ☆17Updated 5 months ago
- Computational Optimization of DNA Activity (CODA)☆56Updated 2 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 2 months ago
- ☆27Updated 2 months ago
- ☆21Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆38Updated 4 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆47Updated last month
- For fine-tuning Enformer using paired WGS & gene expression data☆12Updated last week
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆58Updated last year
- Code for reproducing the Sei manuscript results☆16Updated 3 years ago
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆15Updated 2 years ago
- Dataloader for applying sequence models to personalized genomics☆22Updated this week
- ☆32Updated this week
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆26Updated 2 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆37Updated last year
- This repository hosts a minimal version of a Python API for BPNet.☆37Updated last week
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆68Updated 3 weeks ago
- Toolset for training quantitative sequence to function models.☆23Updated last year
- Evaluating genomic sequence models for explaining personalized expression variation☆19Updated last year
- PyTorch implementation of Basenji2.☆15Updated 3 weeks ago
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆32Updated this week
- ☆18Updated last year
- Predicting gene expression levels from genomic sequences☆51Updated 4 years ago
- off-targeting assessment of Cas9 gRNAs☆13Updated 3 years ago
- PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data☆43Updated last year
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated last year
- ☆24Updated 2 months ago
- ☆34Updated 2 years ago