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Showing results

Single-cell analysis in Python. Scales to >1M cells.

Python 1,958 608 Updated Dec 23, 2024

popsicleR, a flexible R package aimed at providing most of the necessary quality controls and preliminary information for complete and detailed analysis of single cell RNA-seq data.

R 25 7 Updated May 2, 2024
Jupyter Notebook 1 Updated Aug 17, 2024

A package containing metrics for evaluating subpopulation identification in clusterings, embeddings, graphs and space.

R 5 Updated Dec 10, 2024

Find Inspiration in Design Elements.

JavaScript 268 37 Updated Aug 23, 2024

Single-cell Consensus Clusters of Encoded Subspaces

R 14 4 Updated Aug 14, 2023

AWS Batch based scalable microbial reads calling pipeline

Nextflow 7 1 Updated Aug 14, 2023

Clustering scRNAseq by genotypes

Python 173 46 Updated Nov 15, 2024

scTriangulate is a Python package to mix-and-match conflicting clustering results in single cell analysis and generate reconciled clustering solutions

Python 35 5 Updated Jul 24, 2023

Computational Framework Separating Single-Cell RNA-Seq by Genetic and Contextual Information

R 1 Updated Mar 27, 2024
R 4 Updated Feb 2, 2024

Organize your project into a research website

R 831 106 Updated Dec 13, 2024

Robust, multivariate, multi-sample, multi-celltype QC for single cell RNA-seq data

R 36 4 Updated Nov 14, 2022

An interpretable simulator that generates realistic single-cell gene expression count data with gene correlations recapitulated

HTML 24 4 Updated Nov 2, 2024

scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics

R 88 25 Updated Nov 8, 2024

A causal implicit generative model for simulating single-cell RNA-seq data guided by a gene regulatory network 🧬

Python 23 3 Updated Aug 2, 2024
HTML 24 8 Updated Sep 26, 2024
Python 1 Updated Oct 9, 2022

Table of software for the analysis of single-cell RNA-seq data.

R 309 77 Updated Dec 26, 2024

High-quality QR Code generator library in Java, TypeScript/JavaScript, Python, Rust, C++, C.

Java 5,479 1,135 Updated Nov 18, 2024

Statistical Rethinking Course for Jan-Mar 2023

R 2,232 251 Updated Nov 28, 2023

Benchmarking computational doublet-detection methods for single-cell RNA sequencing data

R 9 5 Updated Feb 25, 2021

Single cell analysis tools for expression from RNA-seq in R

R 10 1 Updated Feb 3, 2016

Code for recreating results for our publication "Programming a Ferroptosis-to-Apoptosis Transition Landscape Revealed Ferroptosis Biomarkers and Repressors for Cancer Therapy"

R 1 Updated Mar 18, 2024
R 2 4 Updated Apr 16, 2024
Jupyter Notebook 2 1 Updated Oct 30, 2024

Biology-centered data-driven quality control for scRNA-seq

Jupyter Notebook 15 2 Updated May 22, 2023
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