π π£ π± Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
β877Mar 11, 2026Updated last month
Alternatives and similar repositories for salmon
Users that are interested in salmon are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Near-optimal RNA-Seq quantificationβ758Mar 16, 2026Updated last month
- Differential analysis of RNA-Seqβ312May 28, 2025Updated 11 months ago
- Rapid Mapping-based Isoform Quantification from RNA-Seq Readsβ127Jun 9, 2022Updated 3 years ago
- RNA-seq alignerβ2,188Mar 18, 2025Updated last year
- Rapid sensitive and accurate read mapping via quasi-mappingβ90Jun 5, 2020Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer β’ AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Useful tools for working with Salmon outputβ38Jun 24, 2020Updated 5 years ago
- Aggregate results from bioinformatics analyses across many samples into a single report.β1,446Apr 24, 2026Updated last week
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)β2,341Apr 24, 2026Updated last week
- Transcript quantification import with automatic metadata detectionβ72Apr 16, 2026Updated 2 weeks ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq dataβ470Apr 21, 2026Updated last week
- Transcript assembly and quantification for RNA-Seqβ508Dec 26, 2025Updated 4 months ago
- Graph-based alignment (Hierarchical Graph FM index)β534Jan 27, 2026Updated 3 months ago
- SUPPA: Fast quantification of splicing and differential splicingβ298Nov 6, 2025Updated 5 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequencesβ2,164Apr 25, 2026Updated last week
- Managed hosting for WordPress and PHP on Cloudways β’ AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- The next version of bwa-memβ830Oct 15, 2025Updated 6 months ago
- Transcript quantification import for modular pipelinesβ144Apr 15, 2026Updated 2 weeks ago
- Trinity RNA-Seq de novo transcriptome assemblyβ891Apr 23, 2026Updated last week
- Tools to process and analyze deep sequencing data.β759Jul 23, 2025Updated 9 months ago
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and moreβ477Apr 10, 2026Updated 3 weeks ago
- Cutadapt removes adapter sequences from sequencing readsβ578Apr 6, 2026Updated 3 weeks ago
- π π¬π¦ alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcβ¦β203Apr 15, 2026Updated 2 weeks ago
- SRA Toolsβ1,329Updated this week
- Prepare Sailfish and Salmon output for downstream analysisβ42Jun 6, 2019Updated 6 years ago
- 1-Click AI Models by DigitalOcean Gradient β’ AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Tools for working with SAM/BAM dataβ610Dec 22, 2024Updated last year
- Toolkit for processing sequences in FASTA/Q formatsβ1,538Jun 1, 2025Updated 11 months ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFFβ272Mar 15, 2026Updated last month
- Consistent adapter and quality trimming for NGS, with extra functionality for RRBS dataβ549Updated this week
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulationβ1,545Apr 23, 2026Updated last week
- BEDOPS: high-performance genomic feature operationsβ368Apr 29, 2025Updated last year
- C++ API & command-line toolkit for working with BAM dataβ429May 18, 2025Updated 11 months ago
- Fast fusion detection using kallistoβ79Jun 11, 2025Updated 10 months ago
- Tools for handling Unique Molecular Identifiers in NGS data setsβ544Apr 23, 2026Updated last week
- Deploy open-source AI quickly and easily - Special Bonus Offer β’ AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Tools for processing UMI RNA-tag dataβ132Mar 15, 2023Updated 3 years ago
- An efficient index for the colored, compacted, de Bruijn graphβ112Mar 11, 2026Updated last month
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)β1,731Mar 22, 2025Updated last year
- bedtools - the swiss army knife for genome arithmeticβ1,030Mar 11, 2025Updated last year
- R toolkit for single cell genomicsβ2,718Updated this week
- A fast and sensitive gapped read alignerβ789Mar 7, 2026Updated last month
- Scallop is a reference-based transcriptome assembler for RNA-seqβ93Apr 30, 2021Updated 5 years ago