schillerlab / sc-toolbox
A collection of project templates and useful functions for single-cell data analysis with Scanpy.
☆20Updated last year
Alternatives and similar repositories for sc-toolbox:
Users that are interested in sc-toolbox are comparing it to the libraries listed below
- Analyzing chromatin accessibility data in R☆18Updated last year
- Algorithms for single-cell analysis☆29Updated 3 years ago
- An R wrapper for too-many-cells, for clustering single cells and analyzing cell clade relationships with colorful visualizations.☆25Updated 5 years ago
- Collection of useful methods for single cell analysis☆14Updated 6 months ago
- Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3☆39Updated last year
- Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.☆36Updated this week
- Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas☆25Updated last year
- Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours☆26Updated 4 years ago
- epigenome analysis to rank transcription factors☆13Updated 5 years ago
- A guide to using the Python scRNA-seq analysis package Scanpy from R☆14Updated 4 years ago
- A study to compare methods for clustering of scRNA-seq data☆42Updated 7 months ago
- ☆35Updated last week
- Information-based dimensionality reduction☆29Updated 2 months ago
- scOpen: single-cell open chromatin analysis via NMF modelling☆26Updated 2 years ago
- ☆29Updated last year
- Predicted cell-cell interactions of the aging mouse brain☆20Updated 5 years ago
- Using BCR and expression for sequence embedding☆21Updated this week
- R/Bioconductor package for working with 10x scATACseq data☆38Updated last year
- MarcoPolo is a clustering-free approach to the exploration of bimodally expressed genes along with group information in single-cell RNA-s…☆20Updated 3 months ago
- CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq☆16Updated 3 years ago
- Code repository for the snRNA-seq cross-tissue atlas project☆20Updated 3 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
- Human brain, >200,000 nuclei☆24Updated 3 years ago
- 10x single cell RNA-seq data from the developing mouse retina☆16Updated 4 years ago
- RNA velocity validation☆23Updated 2 years ago
- ☆45Updated 7 months ago
- Reproducible pipeline for "Comprehensive evaluation of cell-type quantification methods for immuno-oncology", Sturm et al. 2019, https://…☆42Updated 4 years ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆48Updated last week
- Automated cell filtering for single-cell RNA sequencing data☆24Updated last year
- Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆16Updated 3 years ago