Differential expression of RNA-seq data using the Negative Binomial
☆465Mar 12, 2026Updated 3 months ago
Alternatives and similar repositories for DESeq2
Users that are interested in DESeq2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A universal enrichment tool for interpreting omics data☆1,211Updated this week
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆472Apr 21, 2026Updated 2 months ago
- A quality control analysis tool for high throughput sequencing data☆602Jun 22, 2026Updated last week
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆898Jun 23, 2026Updated last week
- Transcript assembly and quantification for RNA-Seq☆516Jun 3, 2026Updated 3 weeks ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- R toolkit for single cell genomics☆2,757Updated this week
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,917Jun 18, 2026Updated last week
- RNA-seq aligner☆2,216Mar 18, 2025Updated last year
- Cutadapt removes adapter sequences from sequencing reads☆582Jun 22, 2026Updated last week
- Make Complex Heatmaps☆1,516Apr 2, 2026Updated 2 months ago
- Near-optimal RNA-Seq quantification☆766Mar 16, 2026Updated 3 months ago
- ☆413Jan 13, 2022Updated 4 years ago
- Tools to process and analyze deep sequencing data.☆762Updated this week
- MACS -- Model-based Analysis of ChIP-Seq☆776Jun 17, 2026Updated last week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,384Updated this week
- ☆456May 26, 2026Updated last month
- Transcript quantification import for modular pipelines☆145Apr 15, 2026Updated 2 months ago
- RNA velocity estimation in Python☆175Oct 7, 2025Updated 8 months ago
- A fast and sensitive gapped read aligner☆795Jun 1, 2026Updated 3 weeks ago
- SRA Tools☆1,346Updated this week
- R package for identifying differentially expressed genes from genome-wide gene expression profiling studies.☆21Jun 21, 2019Updated 7 years ago
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆488Apr 10, 2026Updated 2 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,204May 19, 2026Updated last month
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- DESeq2 or edgeR☆22Sep 28, 2016Updated 9 years ago
- Consistent adapter and quality trimming for NGS, with extra functionality for RRBS data☆561Updated this week
- Graph-based alignment (Hierarchical Graph FM index)☆539Jan 27, 2026Updated 5 months ago
- fork of RSeQC python RNAseq metrics suit of tools☆55Jan 27, 2019Updated 7 years ago
- Fast Gene Set Enrichment Analysis☆448Updated this week
- ☆308Jun 1, 2026Updated 3 weeks ago
- Visualization of Functional Enrichment Result☆258Updated this week
- Single-cell analysis in Python. Scales to >100M cells.☆2,493Updated this week
- RNA-seq workflow using STAR and DESeq2☆367Dec 18, 2025Updated 6 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Toolkit for processing sequences in FASTA/Q formats☆1,542Jun 1, 2025Updated last year
- SortMeRNA: next-generation sequence filtering and alignment tool☆295Jun 3, 2026Updated 3 weeks ago
- Accelerated BLAST compatible local sequence aligner.☆1,307Jun 18, 2026Updated last week
- Differential analysis of RNA-Seq☆315May 28, 2025Updated last year
- ChIP peak Annotation, Comparison and Visualization☆256Apr 29, 2026Updated 2 months ago
- Clone of the Bioconductor repository for the RUVSeq package, see https://bioconductor.org/packages/devel/bioc/html/RUVSeq.html for the of…☆15Nov 22, 2022Updated 3 years ago
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆339Apr 23, 2024Updated 2 years ago