saezlab / footprints
Analysis code for "Perturbation-response genes reveal signaling footprints in cancer gene expression"
☆20Updated 6 years ago
Alternatives and similar repositories for footprints:
Users that are interested in footprints are comparing it to the libraries listed below
- Cell type specific enrichments using finemapped variants and quantitative epigenetic data☆45Updated last year
- Scripts needed to generate the figures for the Monocle 2 paper (Qiu et al, 2017)☆29Updated 4 years ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆21Updated 10 months ago
- ☆49Updated 9 months ago
- Clone identification from single-cell data☆61Updated 2 years ago
- ☆41Updated 4 years ago
- A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method☆43Updated 4 years ago
- ☆33Updated last year
- 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
- Inferring CNV data from single cell ATAC seq☆23Updated last year
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 4 years ago
- An R package to plot maps of clone distributions in somatic evolution☆17Updated last year
- ☆32Updated 5 years ago
- Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data☆36Updated last year
- ☆30Updated 3 months ago
- Reconstruction of spatial context of gene expression with optimal transport☆11Updated 6 years ago
- Bead-based single-cell atac processing☆33Updated 3 years ago
- scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data☆29Updated 2 years ago
- Repository for scRNAseq study of human kidneys☆15Updated 5 years ago
- ☆30Updated 2 years ago
- mutation(barcode) caller for 10x single cell data☆44Updated 4 years ago
- psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels☆39Updated 2 years ago
- Evaluation of the effect of quantification choices on RNA velocity estimates☆27Updated 3 years ago
- This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.☆21Updated 2 years ago
- Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis☆23Updated 2 years ago
- Bioinformatics pipeline for single-cell 3' UTR isoform quantification☆22Updated 5 months ago
- Clone of the Bioconductor repository for the batchelor package.☆16Updated last month
- ☆12Updated 9 months ago
- SIB/Scilifelab autumn school in single cell omics 2019.☆22Updated 5 years ago
- Single-cell Case Control Analysis☆48Updated 6 months ago