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The Top 23 Rna Seq Open Source Projects

Open source projects categorized as Rna Seq
Categories > Rna Seq
Rnaseq ⭐ 718
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
most recent commit 3 months ago
Salmon ⭐ 661
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
most recent commit 8 months ago
Deeptools ⭐ 644
Tools to process and analyze deep sequencing data.
most recent commit 16 days ago
Rna Seq Analysis ⭐ 614
RNAseq analysis notes from Ming Tang
most recent commit 2 years ago
Kallisto ⭐ 601
Near-optimal RNA-Seq quantification
total releases 1most recent commit 4 months ago
Single Cell Best Practices ⭐ 544
https://www.sc-best-practices.org
most recent commit 4 months ago
Pydeseq2 ⭐ 470
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
most recent commit 3 months ago
Nichenetr ⭐ 416
NicheNet: predict active ligand-target links between interacting cells
most recent commit 3 months ago
Single Cell Pseudotime ⭐ 367
An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
most recent commit 3 months ago
Snakepipes ⭐ 359
Customizable workflows based on snakemake and python for the analysis of NGS data
most recent commit 3 months ago
Scrna Tools ⭐ 295
Table of software for the analysis of single-cell RNA-seq data.
most recent commit 15 days ago
Mixcr ⭐ 291
MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
most recent commit 3 months ago
Training Material ⭐ 284
A collection of Galaxy-related training material
most recent commit 3 months ago
Rna Seq Star Deseq2 ⭐ 282
RNA-seq workflow using STAR and DESeq2
most recent commit 5 months ago
Sleuth ⭐ 266
Differential analysis of RNA-Seq
most recent commit a year ago
Zumis ⭐ 232
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
most recent commit a year ago
Youtubetutorials ⭐ 180
most recent commit 4 months ago
Sccatch ⭐ 171
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
total releases 5most recent commit a year ago
Bioc Refcard ⭐ 170
Bioconductor cheat sheet
most recent commit 2 years ago
Arriba ⭐ 165
Fast and accurate gene fusion detection from RNA-Seq data
most recent commit a year ago
Dittoseq ⭐ 153
Color blindness friendly visualization of single-cell and bulk RNA-sequencing data
most recent commit 5 months ago
Bambu ⭐ 150
Reference-guided transcript discovery and quantification for long read RNA-Seq data
most recent commit 4 months ago
Armor ⭐ 146
Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
most recent commit a year ago
The 7 Most Depended On Rna Seq Open Source Projects
Geoparse ⭐ 98
Python library to access Gene Expression Omnibus Database (GEO)
dependent packages 9total releases 23latest release February 03, 2021most recent commit 3 years agopypi GEOparse} Downloads
Sequana ⭐ 136
Sequana: a set of Snakemake NGS pipelines
dependent packages 8total releases 90latest release December 06, 2023most recent commit 4 months agopypi sequana} Downloads
Nease ⭐ 7
A network-based approach for exon set enrichment
dependent packages 2total releases 13latest release April 21, 2022most recent commit 2 years agopypi nease} Downloads
Liqa ⭐ 30
Long-read Isoform Quantification and Analysis
dependent packages 2total releases 31latest release July 12, 2022most recent commit 7 months agopypi liqa} Downloads
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38latest release February 10, 2023most recent commit a year agopypi agfusion} Downloads
The 10 Latest Releases In Rna Seq Open Source Projects
Sequana ⭐ 136
Sequana: a set of Snakemake NGS pipelines
dependent packages 8total releases 90latest release December 06, 2023most recent commit 4 months agopypi sequana} Downloads
Rnalysis ⭐ 114
RNA sequencing analysis software
total releases 43latest release November 22, 2023most recent commit 4 months ago
Curare ⭐ 6
Curare - A customizable and reproducible analysis pipeline for RNA-Seq experiments
total releases 5latest release November 16, 2023most recent commit 5 months ago
Tomicsvis ⭐ 50
Transcriptomics Visualization R package.
total releases 1latest release July 06, 2023most recent commit 3 months ago
Sccatch ⭐ 171
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
total releases 5latest release April 23, 2023most recent commit a year ago
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38latest release February 10, 2023most recent commit a year agopypi agfusion} Downloads
Trackcluster ⭐ 9
An analysis pipeline for Nanopore direct-RNA sequencing
total releases 5latest release January 24, 2023most recent commit 5 months ago
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