Oshlack / speckle
R package for specialised analysis of single cell data
☆38Updated 2 years ago
Alternatives and similar repositories for speckle:
Users that are interested in speckle are comparing it to the libraries listed below
- Cell type pipes for R☆51Updated last year
- Cluster Identity Predictor (R package implementation)☆20Updated 3 years ago
- SIB/Scilifelab autumn school in single cell omics 2019.☆22Updated 5 years ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆73Updated 10 months ago
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆34Updated 2 years ago
- Robust, multivariate, multi-sample, multi-celltype QC for single cell RNA-seq data☆37Updated 2 years ago
- ☆59Updated 5 years ago
- A tool for removing doublets from single-cell RNA-seq data☆73Updated 4 years ago
- psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels☆38Updated 2 years ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆75Updated 6 months ago
- An r package that works as a wrapper to homologene☆43Updated last year
- A unified interface to spatial transcriptomics deconvolution tools☆40Updated 2 weeks ago
- ☆36Updated last year
- ☆53Updated 4 years ago
- Aligning gene expression trajectories of single-cell reference and query systems☆60Updated 5 months ago
- A manually curated database of literature-supported ligand-receptor interactions in human and mouse☆29Updated 8 months ago
- ☆38Updated 4 years ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆31Updated 9 months ago
- Single cell RNA-seq analysis bundle☆34Updated 5 years ago
- Toolkit for Single-Cell Velocity☆54Updated 2 months ago
- scWGCNA☆58Updated 2 years ago
- an integrative analysis tool for analysing large-scale single cell RNA-sequencing data☆33Updated last year
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆26Updated 3 months ago
- R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.☆44Updated 2 months ago
- Capybara: A computational tool to measure cell identity and fate transitions☆57Updated 2 years ago
- scDataviz: single cell dataviz and downstream analyses☆63Updated 3 years ago
- Clone of the Bioconductor repository for the scran package.☆41Updated 6 months ago
- The scripts used for analyzing JAX mouse dataset☆23Updated 4 months ago
- ☆40Updated 3 years ago
- Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data☆35Updated 3 years ago