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The Top 21 Bioinformatics Scrna Seq Open Source Projects

Open source projects categorized as Bioinformatics Scrna Seq
Categories > Data Processing > Bioinformatics
Categories > Scrna Seq
Salmon ⭐ 661
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
most recent commit 8 months ago
Scgen ⭐ 215
Single cell perturbation prediction
dependent packages 2total releases 9most recent commit 7 months agopypi scgen} Downloads
Splatter ⭐ 195
Simple simulation of single-cell RNA sequencing data
most recent commit 6 months ago
Souporcell ⭐ 134
Clustering scRNAseq by genotypes
most recent commit 7 months ago
Scarf ⭐ 83
Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
dependent packages 1total releases 43most recent commit 3 months agopypi scarf} Downloads
Cirrocumulus ⭐ 63
Bring your single-cell data to life
total releases 147most recent commit 22 days ago
Cell2cell ⭐ 44
User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
most recent commit 5 months ago
Mudskipper ⭐ 25
A tool for projecting genomic alignments to transcriptomic coordinates
total releases 1most recent commit a year ago
Pcaone ⭐ 24
Principal Component Analysis All in One
most recent commit 4 months ago
Pathogentrack ⭐ 22
A pipeline to identify pathogenic microorganisms from scRNA-seq raw data.
most recent commit 8 months ago
Clustergrammer2 Notebooks ⭐ 22
Examples using Clustergrammer2 to explore high-dimensional datasets.
most recent commit 4 years ago
Cellguide ⭐ 22
🧭 Navigate single-cell RNA-seq datasets in your web browser.
most recent commit 10 months ago
Cell2sentence Ft ⭐ 21
Cell2Sentence turns scRNA-seq data into text for LLM training.
most recent commit 7 months ago
Cellenium ⭐ 20
Cellenium is a FAIR and scalable interactive visual analytics app for scRNA-Seq data (single-cell RNA sequencing).
most recent commit 6 months ago
Symphonypy ⭐ 19
Port of symphony algorithm of single-cell reference atlas mapping to Python
total releases 3most recent commit 8 months ago
Bgeedb_r ⭐ 13
Source code of the R packge BgeeDB to use data from the Bgee database
most recent commit 5 months ago
Scinsight ⭐ 11
Matrix factorization model for interpreting single cell gene expression in biologically heterogeneous data
most recent commit 2 years ago
Cellscopes.jl ⭐ 9
A Julia package for single cell and spatial data analysis
most recent commit 5 months ago
Irescue ⭐ 8
A tool to quantify transposable elements expression in scRNA-seq
total releases 5most recent commit a year ago
Scruff ⭐ 6
Single Cell RNA-seq UMI Filtering Facilitator
most recent commit a year ago
Dea_seurat ⭐ 6
A Snakemake workflow for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered by the R package Seurat.
most recent commit 4 months ago
The 2 Most Depended On Bioinformatics Scrna Seq Open Source Projects
Scgen ⭐ 215
Single cell perturbation prediction
dependent packages 2total releases 9latest release April 25, 2022most recent commit 7 months agopypi scgen} Downloads
The 6 Latest Releases In Bioinformatics Scrna Seq Open Source Projects
Cirrocumulus ⭐ 63
Bring your single-cell data to life
total releases 147latest release September 29, 2023most recent commit 22 days ago
Irescue ⭐ 8
A tool to quantify transposable elements expression in scRNA-seq
total releases 5latest release March 13, 2023most recent commit a year ago
Symphonypy ⭐ 19
Port of symphony algorithm of single-cell reference atlas mapping to Python
total releases 3latest release January 26, 2023most recent commit 8 months ago
Scgen ⭐ 215
Single cell perturbation prediction
dependent packages 2total releases 9latest release April 25, 2022most recent commit 7 months agopypi scgen} Downloads
Mudskipper ⭐ 25
A tool for projecting genomic alignments to transcriptomic coordinates
total releases 1latest release February 10, 2022most recent commit a year ago
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