aslihankarabacak / FootprintPipeline
Pipeline to find transcription factor footprints in DNase-seq or ATAC-seq datasets
☆12Updated 6 years ago
Alternatives and similar repositories for FootprintPipeline:
Users that are interested in FootprintPipeline are comparing it to the libraries listed below
- Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆16Updated 3 years ago
- scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper☆23Updated 2 years ago
- Repository for scRNAseq study of human kidneys☆15Updated 5 years ago
- ☆12Updated 6 months ago
- R package for reading in & working with NucleoATAC outputs☆26Updated 6 years ago
- Bead-based single-cell atac processing☆31Updated 3 years ago
- ☆17Updated 6 years ago
- This repository contains HCA Benchmarking codes☆26Updated 5 years ago
- A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications☆31Updated 2 years ago
- satuRn is a highly performant and scalable method for performing differential transcript usage analyses.☆20Updated last year
- Analysis of single cell RNA-Seq data from Veres et al.☆12Updated 5 years ago
- GLASS consortium☆13Updated 2 years ago
- Algorithm for detecting alternative splicing in a population of single cells. See details in Welch et al., Nucleic Acids Research 2016: h…☆21Updated 8 years ago
- Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hi…☆26Updated 3 years ago
- Cell type specific enrichments using finemapped variants and quantitative epigenetic data☆42Updated last year
- ☆44Updated 5 months ago
- ☆12Updated 5 years ago
- A toolkit for working with ATAC-seq data.☆24Updated 7 months ago
- Uncertainty-aware quantification of Transposable Elements expression in scRNA-seq☆16Updated 4 months ago
- R package to visualize scRNA sequencing data.☆20Updated 2 years ago
- Analysis code for "Perturbation-response genes reveal signaling footprints in cancer gene expression"☆20Updated 6 years ago
- ReMapEnrich is a R-software package to identify significantly enriched regions from ReMap catalogues or user defined catalogues. ReMapEnr…☆15Updated 2 years ago
- R package for SIGMA, a clusterability measure for scRNA-seq data☆12Updated 3 years ago
- MAnorm2 for Normalizing and Comparing ChIP-seq Samples☆32Updated 2 years ago
- Human brain, >200,000 nuclei☆24Updated 3 years ago
- ☆22Updated 2 years ago
- Analysis of single-cell ChIP-seq datasets : From count matrices to differential analysis☆20Updated 4 years ago
- This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.☆19Updated 3 years ago
- Harvard FAS informatics scRNAseq workshop website☆37Updated 5 years ago
- Allele-Specific Expression by Single-Cell RNA Sequencing☆28Updated 4 years ago