Generate statistics from FASTQ and FASTA files. Also manipulate sequences such as renaming/sorting contigs and converting FASTQ to FASTA. Written in Bash. All in one place.
☆16Jul 14, 2026Updated 3 months ago
Alternatives and similar repositories for sequence-stats
Users that are interested in sequence-stats are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- My R scripts, primarily R plotting scripts + some genomics software including 16S rRNA metataxnomics and RNAseq☆12Dec 19, 2022Updated 3 years ago
- Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files, rename fasta files (prefix a…☆23Jul 22, 2026Updated 3 months ago
- ☆11Nov 17, 2020Updated 5 years ago
- Software GMATA for SSR mining, marker designing, genotyping, plot etc.☆18Oct 6, 2025Updated last year
- Nextflow DSL2 pipeline to generate a Genome Note, including assembly statistics, quality metrics, and Hi-C contact maps. This workflow is…☆27Oct 23, 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.
- TAXnomic Profile Aggregation and STAndardisation☆43May 2, 2026Updated 6 months ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13May 15, 2018Updated 8 years ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆56Sep 1, 2026Updated 2 months ago
- Day 2 of ACAD's 2018 Advanced Bioinformatics Workshop☆12Nov 27, 2018Updated 7 years ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- Phasing of dikaryotic fungal genome assemblies☆13Mar 1, 2023Updated 3 years ago
- Benchmark MinION assembler pipelines and publish your results in a heartbeat!☆15Feb 11, 2020Updated 6 years ago
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated 8 months ago
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 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.
- Additional supplementary information and code, data repository for Fellows Yates, J.A. et al. (2021) PNAS. DOI: http://dx.doi.org/10.1073…☆13Oct 20, 2021Updated 5 years ago
- Ultima scripts related to downstream processing of WGS, MRD, methylation analysis☆11Sep 24, 2026Updated last month
- Annotate your metagenome assemblies☆11Jul 19, 2018Updated 8 years ago
- Fast, Accurate, and Complete SSR Detection in Genomic Sequences☆11Jun 29, 2020Updated 6 years ago
- ☆23Dec 11, 2024Updated last year
- add DNA sequence motifs to ggplot☆14Jun 20, 2018Updated 8 years ago
- A utility to generate input files for taxonomy assignment in QIIME from the NCBI database☆11Sep 7, 2023Updated 3 years ago
- Chromatin ACcessibility and Transcriptomics Unifying Software☆20Oct 25, 2024Updated 2 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆26Jul 10, 2026Updated 3 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- branch of purge haplotigs that inputs multiple bam files☆13Dec 5, 2017Updated 8 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Feb 15, 2019Updated 7 years ago
- ☆26Apr 20, 2023Updated 3 years ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆48Sep 9, 2026Updated last month
- ☆19Jun 26, 2025Updated last year
- a re-packaging of the sankey plot function for kraken reports taken from pavian and sankeyD3 from Florian Breitwieser☆15Dec 5, 2025Updated 10 months ago
- A Nextflow pipeline for fast and accurate SNP distance estimation from WGS read data or genome assemblies☆11Jun 11, 2026Updated 4 months ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Feb 6, 2018Updated 8 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years 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.
- ☆23Aug 13, 2026Updated 2 months ago
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated 3 months ago
- Automatically calculate phylogenetic trees from bacterial core genes☆21May 28, 2026Updated 5 months ago
- Scripts for NGS processing☆16Sep 6, 2017Updated 9 years ago
- ☆14Sep 7, 2026Updated last month
- R package to easily generate "V-plots" of paired-end sequencing data over regions of interest☆11Oct 22, 2026Updated last week
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆131Jun 2, 2026Updated 5 months ago