jzhoulab / puffin_manuscript
☆16Updated last month
Related projects ⓘ
Alternatives and complementary repositories for puffin_manuscript
- Bioinformatic tool for Splice site Strength Estimation using RNA-seq☆15Updated last year
- Code for reproducing the Sei manuscript results☆15Updated 2 years ago
- OCR-Phenotype Association from Tissue-Aware Conservation Inference Toolkit☆16Updated 2 months ago
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆18Updated 7 months ago
- ☆17Updated last year
- Saluki, a method to predict mRNA half-lives from sequence☆22Updated 2 years ago
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆31Updated this week
- Single-cell Hi-C data analysis toolbox☆24Updated 3 years ago
- ☆16Updated 8 months ago
- ☆34Updated 2 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆54Updated last year
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆36Updated 9 months ago
- ☆22Updated 7 months ago
- PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data☆42Updated last year
- Seq2Neo: a comprehensive pipeline for cancer neoantigen immunogenicity prediction☆21Updated last year
- ☆14Updated 3 months ago
- Evaluating genomic sequence models for explaining personalized expression variation☆16Updated 11 months 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
- Clustering TF motif models from multiple species (mostly focused on Drosophila and human) by similarity to remove redundancy☆23Updated last year
- Pipeline for efficient genomic data processing.☆20Updated 2 months ago
- ☆27Updated this week
- General Use Scripts and Helper functions☆17Updated 6 years ago
- LncADeep is an ab initio lncRNA identification and functional annotation tool based on deep learning☆26Updated 6 years ago
- ☆18Updated 2 years ago
- A method for analyzing scATAC-seq experiments.☆23Updated last month
- Computational Optimization of DNA Activity (CODA)☆41Updated 2 months ago
- Snakemake pipeline for plate scATAC-seq processing☆26Updated 11 months ago
- SCRIP(Single Cell Regulatory network Inference using ChIP-seq) is a tool for evaluating the binding enrichment of specific TR at single-c…☆18Updated 4 months ago
- The Isoforms from Single-Cell; Long-read Expression Suite☆19Updated 2 months ago
- Cooler demo using a Jupyter notebook Binder☆15Updated 4 years ago