Differential Expression Analysis with InMoose, the Integrated Multi-Omic Open-Source Environment in Python
Maximilien ColangeiD, Guillaume Appé, Léa MeunieriD, Solène WeilliD, Akpéli V. NordoriD, Abdelkader BehdennaiD
Abstract
We present the differential expression features of InMoose, a Python implementation of R tools limma, edgeR, and DESeq2. We experimentally show that InMoose stands as a drop-in replacement for those tools, with nearly identical results. This ensures reproducibility when interfacing both languages in bioinformatic pipelines. InMoose is an open source software released under the GPL3 license, available at www.github.com/epigenelabs/inmoose and https://inmoose.readthedocs.io.
02 /Specification & Classification
Click any tag to browse matching papers- Citations
- 8
- FWCI
- 2.09
- Field percentile
- top 13%
- Assay
- Research Focus
- Approach
Reproducibility ledger
Nobody has reported trying to reproduce this paper yet. Did you replicate an experiment or run the code? Your report saves the next lab a week.
Sign in to file a reproducibility report.
Related papers
- Bulk Transcriptomic Analysis with InMoose, the Integrated Multi-Omic Open-Source Environment in Python
Maximilien Colange, Guillaume Appé, … Abdelkader Behdenna·bioRxiv·Nov 29, 2024
- pylimma: a faithful, AnnData-native Python port of R limma for differential expression analysis
John F. Mulvey·bioRxiv·Jul 10, 2026
- limma powers differential expression analyses for RNA-sequencing and microarray studies
Matthew E. Ritchie, Belinda Phipson, … Gordon K. Smyth·Nucleic Acids ResearchPeer-reviewed·Jan 20, 2015
- edgeR v4: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets
Yunshun Chen, Lizhong Chen, … Gordon K. Smyth·Nucleic Acids ResearchPeer-reviewed·Jan 8, 2025
- PyDESeq2: a python package for bulk RNA-seq differential expression analysis
Boris Muzellec, Maria T. Teleńczuk, … Mathieu Andreux·BioinformaticsPeer-reviewed·Sep 1, 2023
- edgeRun: an R package for sensitive, functionally relevant differential expression discovery using an unconditional exact test
Emmanuel Dimont, Jiantao Shi, … Winston Hide·bioRxiv·Aug 25, 2014