kundajelab / basepairmodelsLinks
☆17Updated 2 years ago
Alternatives and similar repositories for basepairmodels
Users that are interested in basepairmodels are comparing it to the libraries listed below
Sorting:
- IDR☆31Updated 2 years ago
- A framework to score and analyze variant effects genome-wide using ChromBPNet models☆13Updated 2 months ago
- Cooler demo using a Jupyter notebook Binder☆18Updated 4 years ago
- A short tutorial to using DL and keras for genomics with sequence data.☆15Updated 4 years ago
- HiCorr: a Hi-C data bias-correction pipeline☆28Updated 2 months ago
- A method for analyzing scATAC-seq experiments.☆31Updated 3 months ago
- This repository hosts a minimal version of a Python API for BPNet.☆44Updated this week
- This is the package of Yuanfang's winning algorithm in the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge☆20Updated 5 years ago
- Saluki, a method to predict mRNA half-lives from sequence☆24Updated 2 years ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 7 months ago
- Clustering TF motif models from multiple species (mostly focused on Drosophila and human) by similarity to remove redundancy☆26Updated 2 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆38Updated last year
- Software to compute reproducibility and quality scores for Hi-C data☆47Updated 6 years ago
- Code for reproducing the Sei manuscript results☆17Updated 3 years ago
- DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data☆32Updated 2 months ago
- Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.☆30Updated last year
- University of Cambridge PhD thesis☆15Updated 4 years ago
- ☆19Updated 2 years ago
- A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data☆32Updated 5 months ago
- CLIP-seq Analysis of Multi-mapped reads☆30Updated 3 years ago
- Comparison of Hi-C Experiments using Structural Similarity.☆28Updated last year
- Predicting regulatory DNA elements based on epigenomic signatures☆27Updated 11 months ago
- High-definition modeling of chromatin + transcriptomics data☆24Updated 2 months ago
- Tools for making plots of genomic datasets in a genome-browser-like format☆32Updated 6 months ago
- Repo for generating custom blacklist for reads originating from mitochondrial DNA to nuclear genome☆19Updated 3 years ago
- snakemake pipeline for Hi-C post-processing☆22Updated 11 months ago
- Single-cell copy number calling and event history reconstruction.☆25Updated 6 months ago
- simplified cellranger for long-read data☆19Updated 2 months ago
- First version of PORE-cupine. Detecting SHAPE modification using direct RNA sequencing☆14Updated last year
- Single-cell Hi-C data analysis toolbox☆27Updated 3 years ago