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The Top 23 Differential Expression Open Source Projects

Open source projects categorized as Differential Expression
Categories > Differential Expression
Pydeseq2 ⭐ 470
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
most recent commit 4 months ago
Spacexr ⭐ 225
Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics
most recent commit 6 months ago
Diffxpy ⭐ 157
Differential expression analysis for single-cell RNA-seq data.
most recent commit a year ago
Tidybulk ⭐ 153
Brings bulk and pseudobulk transcriptomics to the tidyverse
most recent commit 5 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 4 months agopypi scarf} Downloads
Diffexpr ⭐ 67
Porting DESeq2 into python via rpy2
most recent commit a year 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
Irap ⭐ 58
integrated RNA-seq Analysis Pipeline
most recent commit 5 years ago
Multinichenetr ⭐ 56
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
most recent commit 6 months ago
Scclustviz ⭐ 42
Explore and share your scRNAseq clustering results
most recent commit 8 months ago
Scpower ⭐ 36
Experimental design framework for scRNAseq population studies (eQTL and DE)
most recent commit 5 months ago
Datest ⭐ 34
Compare different differential abundance and expression methods
most recent commit 2 years ago
Differentialabundance ⭐ 34
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
most recent commit 4 months ago
Scpa ⭐ 33
R package for pathway analysis in scRNA-seq data
most recent commit 7 months ago
Volcano3d ⭐ 28
An R package to plot interactive three-way differential expression analysis
total releases 1most recent commit 9 months ago
Ideal ⭐ 28
Interactive Differential Expression AnaLysis - DE made accessible and reproducible
most recent commit 7 months ago
Heatmap Scatter Dash ⭐ 25
Interactive visualizations for differential expression
most recent commit 5 years ago
Tweedieverse ⭐ 24
Differential analysis of multi-omics data based on the Tweedie distribution
most recent commit 5 months ago
Asap ⭐ 24
ASAP : Automated Single-cell Analysis Pipeline
most recent commit 4 months ago
Batchglm ⭐ 22
Fit generalized linear models in python.
most recent commit 2 years ago
Degreport ⭐ 21
Create a cromphensive report of DEG list coming from any analysis of RNAseq data
most recent commit 4 months ago
Bioc_2020_tidytranscriptomics ⭐ 18
Workshop on tidytranscriptomics: Performing tidy transcriptomics analyses with tidybulk, tidyverse and tidyheatmap
most recent commit 4 years ago
Lncpipe ⭐ 18
UNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets
most recent commit 3 years ago
The 4 Latest Releases In Differential Expression Open Source Projects
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
Promor ⭐ 9
A comprehensive R package for label-free proteomics data analysis and modeling
total releases 1latest release July 20, 2022most recent commit 10 months ago
Volcano3d ⭐ 28
An R package to plot interactive three-way differential expression analysis
total releases 1latest release June 04, 2020most recent commit 9 months ago
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