RNA-seq workflow using STAR and DESeq2
☆367Dec 18, 2025Updated 6 months ago
Alternatives and similar repositories for rna-seq-star-deseq2
Users that are interested in rna-seq-star-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 Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.☆69Mar 19, 2026Updated 3 months ago
- This Snakemake pipeline implements the GATK best-practices workflow☆267Jun 8, 2023Updated 3 years ago
- RNA-Seq analysis workflow☆106Jul 14, 2021Updated 4 years ago
- A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.☆107Nov 22, 2022Updated 3 years ago
- Documentation of the Snakemake-Workflows project☆160Feb 2, 2022Updated 4 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Customizable workflows based on snakemake and python for the analysis of NGS data☆406Jun 3, 2026Updated last month
- A template for standard compliant snakemake-workflows☆136Mar 27, 2026Updated 3 months ago
- This is the development home of the Snakemake wrapper repository, see☆248Updated this week
- Sequana: a set of Snakemake NGS pipelines☆151Jul 2, 2026Updated last week
- A SingleCell RNASeq pre-processing pipeline built on snakemake☆14Jan 11, 2023Updated 3 years ago
- Snakemake based pipeline for RNA-Seq analysis☆31Jun 26, 2019Updated 7 years ago
- A Snakemake pipeline to go from fastq mRNA sequencing files to raw and normalised counts (usable for downstream EDA and differential anal…☆18Mar 3, 2023Updated 3 years ago
- RNAseq analysis notes from Ming Tang☆1,093Nov 15, 2021Updated 4 years ago
- Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data☆166Jun 14, 2026Updated 3 weeks ago
- 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.
- This is the development home of the workflow management system Snakemake. For general information, see☆2,826Updated this week
- ChIP-seq analysis notes from Ming Tang☆852Aug 5, 2024Updated last year
- A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, …☆90Updated this week
- A workflow for creating small NGS test data sets, useful for continuous integration.☆24Aug 15, 2024Updated last year
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- (formerly eelpond) an automated RNA-Seq workflow system☆27Oct 14, 2020Updated 5 years ago
- RNA-seq aligner☆2,217Mar 18, 2025Updated last year
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,469Jun 29, 2026Updated last week
- python module to plot beautiful and highly customizable genome browser tracks☆892Jul 10, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Combine reference and assembled transcriptomes for RNA-Seq analysis☆24Feb 12, 2020Updated 6 years ago
- The uncompromising Snakemake code formatter☆194Jun 26, 2026Updated last week
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,332Updated this week
- A Github action for running a Snakemake workflow☆62Apr 24, 2026Updated 2 months ago
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆910Updated this week
- Differential analysis of RNA-Seq☆316May 28, 2025Updated last year
- A tool to find sequencing data and metadata from public databases.☆600Aug 13, 2024Updated last year
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,390Updated this week
- Tools to process and analyze deep sequencing data.☆762Jun 24, 2026Updated 2 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files☆138Jan 28, 2026Updated 5 months ago
- Workflow for ZINB-WaVE + DESeq2 intergration for single-cell RNA-seq☆30Jan 6, 2021Updated 5 years ago
- a snakemake pipeline to process ChIP-seq files from GEO or in-house☆133Jan 1, 2026Updated 6 months ago
- GFF and GTF file manipulation and interconversion☆319Mar 31, 2026Updated 3 months ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆861May 2, 2026Updated 2 months ago
- Transcript assembly and quantification for RNA-Seq☆523Jun 3, 2026Updated last month
- ☆166Apr 13, 2026Updated 2 months ago