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The Top 23 Python Bioinformatics Rna Seq Open Source Projects

Open source projects categorized as Python Bioinformatics Rna Seq
Categories > Data Processing > Bioinformatics
Categories > Rna Seq
Deeptools ⭐ 644
Tools to process and analyze deep sequencing data.
most recent commit 15 days ago
Pydeseq2 ⭐ 470
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
most recent commit 3 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
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
Snakefiles ⭐ 58
🐍 Snakefiles for common RNA-seq data analysis workflows.
most recent commit 7 years ago
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38most recent commit a year agopypi agfusion} Downloads
Finder ⭐ 44
A fully automated gene annotator from RNA-Seq expression data
most recent commit 10 months 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
Metasra Pipeline ⭐ 42
MetaSRA: normalized sample-specific metadata for the Sequence Read Archive
most recent commit 5 months ago
Scaden ⭐ 40
Deep Learning based cell composition analysis with Scaden.
total releases 13most recent commit 3 years ago
Reademption ⭐ 31
A pipeline for the computational evaluation of RNA-Seq data
most recent commit 6 months ago
Ngs ⭐ 30
Next-Gen Sequencing tools from the Horvath Lab
most recent commit a year ago
Transabyss ⭐ 30
de novo assembly of RNA-seq data using ABySS
most recent commit 9 months ago
Pygtftk ⭐ 30
A python package and a set of shell commands to handle GTF files
total releases 29most recent commit a year ago
Zarp ⭐ 26
Zavolan-Lab Automated RNA-Seq Pipeline
most recent commit 5 months ago
Smallrnaseq ⭐ 26
small rna-seq analysis package
total releases 6most recent commit a year ago
Pisces ⭐ 26
PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.
total releases 15most recent commit 9 months ago
Pyrpipe ⭐ 25
Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
total releases 6most recent commit 3 years ago
Pm4ngs ⭐ 21
Project Manager for NGS data analysis
most recent commit 2 years ago
Conekt ⭐ 20
CoNekT (short for Co-expression Network Toolkit) is a platform to browse co-expression data and enable cross-species comparisons.
most recent commit a year ago
Pigx_rnaseq ⭐ 19
Pipeline for RNAseq
most recent commit 6 months ago
Slamdunk ⭐ 18
Streamlining SLAM-seq analysis with ultra-high sensitivity
most recent commit 4 years ago
The 10 Latest Releases In Python 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 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
Scaden ⭐ 40
Deep Learning based cell composition analysis with Scaden.
total releases 13latest release June 10, 2021most recent commit 3 years ago
Pyrpipe ⭐ 25
Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
total releases 6latest release January 18, 2021most recent commit 3 years ago
Smallrnaseq ⭐ 26
small rna-seq analysis package
total releases 6latest release October 23, 2020most recent commit a year ago
Ymp ⭐ 13
Flexible omics pipeline
total releases 6latest release August 17, 2020most recent commit 3 years ago
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