SOAPdenovo-Trans, a de novo transcriptome assembler designed specifically for RNA-Seq. We evaluated its performance on transcriptome datasets from rice and mouse.
☆38Dec 27, 2023Updated 2 years ago
Alternatives and similar repositories for SOAPdenovo-Trans
Users that are interested in SOAPdenovo-Trans are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Next generation sequencing reads de novo assembler.☆241Sep 20, 2025Updated last year
- To tackle the exponentially increasing throughput of Next-Generation Sequencing (NGS), most of the existing short-read aligners can be co…☆31Dec 26, 2023Updated 2 years ago
- Scripts and documentations on the MCSC decontamination method☆10Jun 13, 2023Updated 3 years ago
- de novo assembly of RNA-seq data using ABySS☆33Mar 10, 2026Updated 7 months ago
- Automated optimisation of de-novo transcriptome assembly☆25Nov 11, 2015Updated 10 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.
- De novo transcriptome assembler for short reads☆65May 31, 2026Updated 5 months ago
- blast, shmlast☆21Oct 5, 2020Updated 6 years ago
- A pipeline to assess the quantification of transcripts.☆19Jun 6, 2022Updated 4 years ago
- Demultiplexes a fastq.☆47Dec 21, 2020Updated 5 years ago
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆34Jun 1, 2022Updated 4 years ago
- ☆13Jun 24, 2019Updated 7 years ago
- fastx-utils using klib☆19Sep 1, 2020Updated 6 years ago
- Similar genome assisted reassembly pipeline for PacBio long reads☆11Dec 7, 2021Updated 4 years ago
- Trinity RNA-Seq de novo transcriptome assembly☆902Apr 23, 2026Updated 6 months 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.
- materials for the RNA-Seq workshop on Trinity and Tuxedo, covering de novo and genome-guided transcript assembly and downstream analysis.☆48Oct 18, 2016Updated 10 years ago
- Bioinformatics scripts for genome analysis☆17Oct 26, 2022Updated 4 years ago
- Population Assignment using Genetic, Non-genetic or Integrated Data in a Machine-learning Framework. Methods in Ecology and Evolution.…☆16Sep 12, 2025Updated last year
- consensus approach for community profiling with nanopore amplicon sequencing data☆18Sep 30, 2024Updated 2 years ago
- Reference-free profiling of polyploid genomes☆149Oct 2, 2025Updated last year
- Wrapper for short and long read mapping, creation of quality report(s) and estimation of genome size☆12Sep 30, 2025Updated last year
- Learning to untangle genome assembly with graph neural networks.☆72Nov 17, 2024Updated last year
- Processing protein-coding DNA sequences in frame☆11Updated this week
- visualising sequence similarity with Circos☆41Jul 1, 2019Updated 7 years ago
- 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.
- Scalable high-throughput short-read open reading frame prediction☆12Jan 13, 2017Updated 9 years ago
- Designs for 3D printed parts that were developed in the Zhuang Lab.☆11Dec 2, 2020Updated 5 years ago
- Prefix-renaming FASTA records really fast.☆18Jun 26, 2024Updated 2 years ago
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆150Nov 6, 2024Updated last year
- a fork of the gap-closing pipeline PBJelly☆15Jan 7, 2019Updated 7 years ago
- just annotate it, dammit!☆94Aug 22, 2023Updated 3 years ago
- A scaffold assembling pipeline for stLFR reads.☆14Mar 15, 2021Updated 5 years ago
- Find circRNAs in RNA-seq data.☆15Jul 5, 2016Updated 10 years ago
- Kraken taxonomic sequence classification system☆228Sep 27, 2021Updated 5 years 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.
- Programs and documentation for the SAMSA pipeline, version 1.0☆16Dec 16, 2019Updated 6 years ago
- Introduction to Python3☆11Oct 26, 2020Updated 6 years ago
- Standard tools and protocols for MiSeq amplicon sequencing of 16S rRNA genes☆10Nov 14, 2022Updated 3 years ago
- ☆291Dec 29, 2025Updated 10 months ago
- A tool to use stereo-seq GEM and ssDNA to generate single-cell and 3D spatial resolved transtriptomics data☆14Oct 12, 2023Updated 3 years ago
- ☆18Sep 16, 2026Updated last month
- Ensembl Funcgen Perl API and SQL schema☆15Jul 21, 2025Updated last year