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The Top 23 Python Rna Seq Open Source Projects

Open source projects categorized as Python Rna Seq
Categories > Rna Seq
Deeptools ⭐ 644
Tools to process and analyze deep sequencing data.
most recent commit 17 days ago
Rna Seq Analysis ⭐ 614
RNAseq analysis notes from Ming Tang
most recent commit 2 years ago
Pydeseq2 ⭐ 470
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
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
Rna Seq Star Deseq2 ⭐ 282
RNA-seq workflow using STAR and DESeq2
most recent commit 5 months 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 5 months ago
Xpore ⭐ 122
Identification of differential RNA modifications from nanopore direct RNA sequencing
total releases 20most recent commit 5 months ago
Fusioncatcher ⭐ 117
Finder of Somatic Fusion Genes in RNA-seq data
most recent commit a year ago
Drop ⭐ 114
Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
most recent commit 4 months ago
Rnalysis ⭐ 114
RNA sequencing analysis software
total releases 43most recent commit 4 months ago
Isoquant ⭐ 98
Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
most recent commit 4 months ago
Pipeline Transcriptome De ⭐ 95
Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
most recent commit a year ago
Spark ⭐ 81
Publication quality NGS track plotting
most recent commit 2 years ago
Pychopper ⭐ 74
A tool to identify, orient, trim and rescue full length cDNA reads
most recent commit 2 years ago
Scnym ⭐ 71
Semi-supervised adversarial neural networks for classification of single cell transcriptomics data
total releases 5most recent commit 4 months ago
Diffexpr ⭐ 67
Porting DESeq2 into python via rpy2
most recent commit a year ago
Trinity_ctat ⭐ 63
most recent commit 3 years ago
Rna Seq Kallisto Sleuth ⭐ 63
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
most recent commit 4 months ago
Lorean ⭐ 62
Long Reads Annotation pipeline
most recent commit 2 years ago
Covid 19 Rna Seq Datasets ⭐ 61
A repository for sharing information on available COVID-19 RNA-Seq datasets
most recent commit 2 years ago
Snakefiles ⭐ 58
🐍 Snakefiles for common RNA-seq data analysis workflows.
most recent commit 7 years ago
Poreplex ⭐ 51
A versatile sequenced read processor for nanopore direct RNA sequencing
total releases 7most recent commit 4 years ago
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38most recent commit a year agopypi agfusion} Downloads
The 4 Most Depended On Python Rna Seq Open Source Projects
Liqa ⭐ 30
Long-read Isoform Quantification and Analysis
dependent packages 2total releases 31latest release July 12, 2022most recent commit 7 months agopypi liqa} 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
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 Python 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 5 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
Annogesic ⭐ 25
ANNOgesic - A Swiss army knife for the RNA-Seq based annotation of bacterial/archaeal genomes
total releases 192latest release January 18, 2023most recent commit 3 months ago
Liqa ⭐ 30
Long-read Isoform Quantification and Analysis
dependent packages 2total releases 31latest release July 12, 2022most recent commit 7 months agopypi liqa} 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
Sirvsuite ⭐ 7
SIRVsuite is a command line tool to QC an RNA-Seq workflow using Lexogen's SIRV spike-in controls.
total releases 4latest release January 13, 2022most recent commit 4 months ago
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