Tutorial for the analysis of scRNA-seq data in R
☆18Aug 28, 2018Updated 7 years ago
Alternatives and similar repositories for singlecellworkflow
Users that are interested in singlecellworkflow are comparing it to the libraries listed below
Sorting:
- Robust and scalable inference of cell lineages via consensus clustering. Features novel algorithms for the comparison of weighted graphs …☆14Jan 16, 2017Updated 9 years ago
- Multi-sample Unified Discriminant ANalysis☆75Apr 11, 2023Updated 2 years ago
- R as a backend for web apps.☆10Mar 7, 2018Updated 7 years ago
- A small R package to make sequencing read coverage plots in R.☆40Dec 30, 2025Updated 2 months ago
- Perform differential expression analysis on cohort-scale single cell datasets using linear mixed models☆21Feb 2, 2026Updated 3 weeks ago
- Code for the paper on t-SNE with variable degree of freedom☆12Jun 27, 2019Updated 6 years ago
- Identified novel mouse spermatogenesis biomarkers based on single-cell RNA sequencing data☆11Jun 7, 2022Updated 3 years ago
- Annotate 2D point clouds using overlay polygons☆15Jun 19, 2025Updated 8 months ago
- Gene Set Enrichment Analysis in Python☆11Oct 26, 2018Updated 7 years ago
- "Dissecting cell-type composition and activity-dependent transcriptional state in mammalian brains by massively parallel single-nucleus R…☆13Jan 7, 2018Updated 8 years ago
- Open Targets Genetics UI☆15Jan 31, 2025Updated last year
- Seamless navigation through combined results of set-based and network-based enrichment analysis☆22Sep 14, 2025Updated 5 months ago
- Reproducible GSEA Benchmarking☆14Oct 30, 2025Updated 4 months ago
- pipelines to process scRNA-seq data☆12Jan 11, 2021Updated 5 years ago
- Code and analysis for the 1000 tools paper☆11Nov 12, 2021Updated 4 years ago
- Scripts for generating integrated dataset from publically available data sources to evaluate known genetic associations evidence of varyi…☆11May 5, 2020Updated 5 years ago
- Probabilistic single-cell pseudotime with Edward+Tensorflow☆12Oct 5, 2017Updated 8 years ago
- ☆13Nov 13, 2018Updated 7 years ago
- ☆15Jun 3, 2019Updated 6 years ago
- ☆13Feb 4, 2015Updated 11 years ago
- Source code and data supporting "Evaluating measures of association for single-cell transcriptomics"☆16Feb 25, 2019Updated 7 years ago
- Telomerecat: The telomere computational analysis tool☆14Oct 9, 2020Updated 5 years ago
- ☆13Feb 16, 2019Updated 7 years ago
- requirements, examples, and tests for expression matrix file formats☆22Sep 18, 2018Updated 7 years ago
- The KEGGgraph package to parse KEGG pathways in R into graph objects☆14Apr 14, 2025Updated 10 months ago
- SLICER algorithm for inferring cell trajectories. See details in Welch et al., Genome Biology 2016: http://genomebiology.biomedcentral.co…☆15Oct 17, 2017Updated 8 years ago
- DSL for dynamic programming☆17Dec 11, 2019Updated 6 years ago
- Acquiring images from allen brain atlas, mouse ISH experiments in R.☆17Mar 20, 2024Updated last year
- The AnnSQL package enables SQL based queries on AnnData objects.☆41Aug 20, 2025Updated 6 months ago
- XL-mHG: A Semiparametric Test for Enrichment in Ranked Lists.☆13Jan 19, 2023Updated 3 years ago
- WES HLA Typing based on multiple alternative tools☆18Mar 8, 2021Updated 4 years ago
- Source code of the R packge BgeeDB to use data from the Bgee database☆16Oct 8, 2025Updated 4 months ago
- Trans-association between HLA and TCR-CDR3☆19Mar 29, 2023Updated 2 years ago
- Vials is a Caleydo Web application for visualizing alternative splicing based on mRNAseq data.☆13Jan 8, 2018Updated 8 years ago
- This repository is retired software☆14Oct 29, 2015Updated 10 years ago
- R markdown notebooks for the Tabula Muris network analysis in Iacono et al. (2019)☆12Jun 30, 2021Updated 4 years ago
- Linear trajectory inference for single-cell RNA-seq☆61Nov 26, 2025Updated 3 months ago
- Scripts for reproducing analyses of large RNA-seq datasets☆15May 22, 2019Updated 6 years ago
- Dimensionality reduction for single cell RNA-seq data☆36Feb 9, 2020Updated 6 years ago