Assorted thoughts, explanations and justifications for code in the scran package and the simpleSingleCell workflow.
☆49Sep 18, 2025Updated 11 months ago
Alternatives and similar repositories for SingleCellThoughts
Users that are interested in SingleCellThoughts are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Automate package and project setup for Bioconductor packages☆56Mar 31, 2026Updated 4 months ago
- ☆12May 30, 2023Updated 3 years ago
- easy access to benchmark datasets☆51Aug 17, 2018Updated 8 years ago
- R scripts for analyzing the 1.3 million brain cell data set from 10X Genomics☆12Mar 15, 2023Updated 3 years ago
- Analysis code and results for dreamlet☆11Apr 16, 2026Updated 4 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- ☆40May 10, 2026Updated 3 months ago
- Clone of the Bioconductor repository for the basilisk package.☆29Nov 8, 2025Updated 9 months ago
- An online companion to the OSCA manuscript demonstrating Bioconductor resources and workflows for single-cell RNA-seq analysis.☆37Mar 15, 2023Updated 3 years ago
- Clone of the Bioconductor repository for the scRNAseq package.☆30Oct 10, 2025Updated 10 months ago
- ☆11Sep 5, 2018Updated 7 years ago
- The blog of tidyomics☆13Jul 12, 2025Updated last year
- ☆13Jan 15, 2021Updated 5 years ago
- Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq☆30Jan 6, 2021Updated 5 years ago
- Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCe…☆75Jul 16, 2026Updated last month
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Clone of the Bioconductor repository for the batchelor package.☆19Apr 9, 2026Updated 4 months ago
- Collection of cell type reference datasets.☆67May 31, 2024Updated 2 years ago
- Explore design matrices interactively with R/Shiny☆38Apr 28, 2026Updated 4 months ago
- ☆20Jul 13, 2026Updated last month
- MATLAB implementation of Gene Set Enrichment Analysis (GSEA) method for finding pathways which can show more complex relation between cha…☆10Sep 7, 2022Updated 3 years ago
- Glimma R package☆50Sep 2, 2024Updated last year
- Dynamical systems methods for RNA velocity analysis☆24May 19, 2021Updated 5 years ago
- Tools and methods for analysis of single cell assay data in R☆264Oct 17, 2025Updated 10 months ago
- repo to explore spatial data in R/Bioconductor and Python☆12Dec 3, 2019Updated 6 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Density-preserving data visualization tools den-SNE and densMAP☆117Apr 27, 2021Updated 5 years ago
- Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data☆42Nov 18, 2021Updated 4 years ago
- Normalize CITEseq Data☆71Nov 9, 2025Updated 9 months ago
- Toolkit for Single-Cell Velocity☆61Apr 17, 2026Updated 4 months ago
- A Grammar of Data Manipulation for Omics Data☆21Aug 31, 2020Updated 5 years ago
- Helpers for working with ChromHMM (http://compbio.mit.edu/ChromHMM/)☆18Feb 26, 2018Updated 8 years ago
- Scripts related to VISp and ALM scRNA-seq and FISH analysis for Tasic, et al., 2018.☆24Jun 15, 2018Updated 8 years ago
- Code and results from TotalSeqC antibody titration and pipeline benchmarking for CITE-seq experiments☆10Mar 13, 2021Updated 5 years ago
- An R package designed to demultiplex cell hashing data☆32Aug 10, 2026Updated 3 weeks ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Code for evaluation of differential expression methods in single-cell RNA-seq data☆114Aug 13, 2020Updated 6 years ago
- BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/pa…☆88Apr 14, 2026Updated 4 months ago
- Predicted cell-cell interactions of the aging mouse brain☆21Sep 24, 2019Updated 6 years ago
- Multi-sample Unified Discriminant ANalysis☆75Apr 11, 2023Updated 3 years ago
- ☆30Nov 21, 2019Updated 6 years ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆57Jun 2, 2026Updated 2 months ago
- An R package to analyze single-cell V(D)J data☆30Nov 13, 2023Updated 2 years ago