kundajelab / basepairmodels
☆16Updated last year
Related projects ⓘ
Alternatives and complementary repositories for basepairmodels
- IDR☆30Updated last year
- OCR-Phenotype Association from Tissue-Aware Conservation Inference Toolkit☆16Updated last month
- A method for analyzing scATAC-seq experiments.☆23Updated last month
- ☆33Updated last month
- Saluki, a method to predict mRNA half-lives from sequence☆21Updated 2 years ago
- Cooler demo using a Jupyter notebook Binder☆15Updated 4 years ago
- Clustering TF motif models from multiple species (mostly focused on Drosophila and human) by similarity to remove redundancy☆23Updated last year
- HiCorr: a Hi-C data bias-correction pipeline☆27Updated last year
- DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data☆29Updated last year
- Code for reproducing the Sei manuscript results☆15Updated 2 years ago
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆15Updated last year
- Comparison of Hi-C Experiments using Structural Similarity.☆26Updated last year
- Code accompanying "Direct detection of RNA modifications and structure using single molecule nanopore sequencing"☆13Updated 3 years ago
- High-definition modeling of chromatin + transcriptomics data☆17Updated this week
- University of Cambridge PhD thesis☆15Updated 3 years ago
- This is the package of Yuanfang's winning algorithm in the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge☆20Updated 4 years ago
- First version of PORE-cupine. Detecting SHAPE modification using direct RNA sequencing☆14Updated last year
- Software to compute reproducibility and quality scores for Hi-C data☆43Updated 5 years ago
- snakemake pipeline for Hi-C post-processing☆22Updated 4 months ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆36Updated 9 months ago
- Weighted Nearest Neighbors Analysis implemented in Python (pyWNN)☆10Updated 3 years ago
- Tissue-specific variant effect predictions on splicing☆40Updated last year
- ☆27Updated this week
- CLIP-seq Analysis of Multi-mapped reads☆28Updated 3 years ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆58Updated 4 months ago
- A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns☆27Updated last year
- Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.☆25Updated last year
- Single-cell copy number calling and event history reconstruction.☆20Updated 3 months ago
- Identify cell barcodes from single-cell genomics sequencing experiments☆41Updated 2 years ago