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The Top 23 Bioinformatics Rna Seq Open Source Projects

Open source projects categorized as Bioinformatics Rna Seq
Categories > Data Processing > Bioinformatics
Categories > Rna Seq
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 a month ago
Pydeseq2 ⭐ 470
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
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
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
Youtubetutorials ⭐ 180
most recent commit 4 months ago
Bioc Refcard ⭐ 170
Bioconductor cheat sheet
most recent commit 2 years ago
Rnaseq Workflow ⭐ 133
A repository for setting up a RNAseq workflow
most recent commit 7 years ago
Seq2science ⭐ 132
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
most recent commit 6 months ago
Rnaseqc ⭐ 132
Fast, efficient RNA-Seq metrics for quality control and process optimization
most recent commit 3 months ago
Kana ⭐ 131
Single cell analysis in the browser
most recent commit 15 days ago
Rnalysis ⭐ 114
RNA sequencing analysis software
total releases 43most recent commit 4 months ago
Geoparse ⭐ 98
Python library to access Gene Expression Omnibus Database (GEO)
dependent packages 9total releases 23most recent commit 3 years agopypi GEOparse} Downloads
Isoquant ⭐ 98
Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
most recent commit 4 months ago
Biojupies ⭐ 94
Automated generation of tailored bioinformatics Jupyter Notebooks via a user interface.
most recent commit 2 years ago
Dolphinnext ⭐ 92
A graphical user interface for distributed data processing of high throughput genomics
most recent commit a year ago
Callings Nf ⭐ 76
GATK RNA-Seq Variant Calling in Nextflow
most recent commit 3 years ago
Startapp ⭐ 71
The START App: R Shiny Transcriptome Analysis Resource Tool
most recent commit 3 years ago
Single Cell Training ⭐ 63
SIB course on single cell transcriptomics by mostly using the Seurat pipeline
most recent commit 5 months ago
Snakefiles ⭐ 58
🐍 Snakefiles for common RNA-seq data analysis workflows.
most recent commit 7 years ago
Cello ⭐ 53
CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
total releases 7most recent commit 10 months ago
Rattle ⭐ 51
Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing
most recent commit 5 months ago
Ggvolc ⭐ 50
𝐠𝐠𝐯𝐨𝐥𝐜 effortlessly translates differential expression datasets and RNAseq data into informative volcano plots. Highlight genes of interest with unprecedented ease. With just a single line of code, visualize complex datasets, gaining deeper insights and simplifying data representation
most recent commit 7 months ago
The 2 Most Depended On Bioinformatics 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
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 Bioinformatics Rna Seq Open Source Projects
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 6 months ago
Tomicsvis ⭐ 50
Transcriptomics Visualization R package.
total releases 1latest release July 06, 2023most recent commit 4 months 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
Ciara_python ⭐ 6
Implementation of entropy of mixing algorithm in python
total releases 8latest release October 19, 2022most recent commit 2 years ago
Cello ⭐ 53
CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology
total releases 7latest release September 28, 2022most recent commit 10 months ago
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