RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
☆471Apr 21, 2026Updated last month
Alternatives and similar repositories for RSEM
Users that are interested in RSEM are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- RNA-seq aligner☆2,202Mar 18, 2025Updated last year
- A short tutorial on how to use RSEM☆138Apr 19, 2020Updated 6 years ago
- Near-optimal RNA-Seq quantification☆764Mar 16, 2026Updated 2 months ago
- Trinity RNA-Seq de novo transcriptome assembly☆895Apr 23, 2026Updated last month
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆484Apr 10, 2026Updated 2 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Transcript assembly and quantification for RNA-Seq☆513Jun 3, 2026Updated last week
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆890Updated this week
- Cutadapt removes adapter sequences from sequencing reads☆582Updated this week
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆275Mar 15, 2026Updated 2 months ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,459May 20, 2026Updated 3 weeks ago
- Graph-based alignment (Hierarchical Graph FM index)☆540Jan 27, 2026Updated 4 months ago
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,068Apr 25, 2026Updated last month
- BEDOPS: high-performance genomic feature operations☆369Apr 29, 2025Updated last year
- MACS -- Model-based Analysis of ChIP-Seq☆776May 6, 2026Updated last month
- 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.
- Consistent adapter and quality trimming for NGS, with extra functionality for RRBS data☆556Jun 6, 2026Updated last week
- TransDecoder source☆305Mar 22, 2026Updated 2 months ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,374Jun 1, 2026Updated last week
- ☆322Mar 31, 2020Updated 6 years ago
- bedtools - the swiss army knife for genome arithmetic☆1,038Mar 11, 2025Updated last year
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,197May 19, 2026Updated 3 weeks ago
- Understand your transcriptome assembly☆101Mar 22, 2024Updated 2 years ago
- Rapid Mapping-based Isoform Quantification from RNA-Seq Reads☆127Jun 9, 2022Updated 4 years ago
- Toolkit for processing sequences in FASTA/Q formats☆1,542Jun 1, 2025Updated last year
- 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.
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,749Mar 22, 2025Updated last year
- Bioconductor package "ballgown", devel version. Isoform-level differential expression analysis in R.☆148Aug 30, 2021Updated 4 years ago
- Tools to process and analyze deep sequencing data.☆761Jul 23, 2025Updated 10 months ago
- Tools for handling Unique Molecular Identifiers in NGS data sets☆547Jun 1, 2026Updated last week
- SRA Tools☆1,346Updated this week
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,914May 21, 2026Updated 3 weeks ago
- Strelka2 germline and somatic small variant caller☆394Apr 20, 2026Updated last month
- SUPPA: Fast quantification of splicing and differential splicing☆304Nov 6, 2025Updated 7 months ago
- MISO: Mixture of Isoforms model for RNA-Seq isoform quantitation☆140Dec 15, 2022Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,569Jun 1, 2026Updated last week
- STAR based ENCODE Long RNA-Seq processing pipeline☆96Apr 16, 2021Updated 5 years ago
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆449Updated this week
- Differential analysis of RNA-Seq☆314May 28, 2025Updated last year
- ☆303Mar 4, 2026Updated 3 months ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆870Apr 20, 2026Updated last month
- TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files☆138Jan 28, 2026Updated 4 months ago