A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
☆96Nov 24, 2025Updated 11 months ago
Alternatives and similar repositories for illumina-utils
Users that are interested in illumina-utils 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 very simple BLAST filtering pipeline☆20Mar 28, 2014Updated 12 years ago
- Exploring microbial patterns through subtle nucleotide variation within 16S rRNA gene tag sequences of closely related taxa☆41Jul 17, 2026Updated 3 months ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 6 years ago
- A repository with scripts to run pipeline that are commonly used in the Meren Lab☆11Feb 7, 2018Updated 8 years ago
- An analysis and visualization platform for 'omics data☆545Updated this week
- 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.
- Bacterial genomes finishing tool for structural insights on draft genomes☆23Sep 22, 2023Updated 3 years ago
- blast, shmlast☆21Oct 5, 2020Updated 6 years ago
- An R package to visualize high-throughput sequencing data.☆13Nov 18, 2019Updated 6 years ago
- A robust, extensible metagenomics pipeline☆177Updated this week
- Improving genome bins through the combination of different binning programs☆31Jan 30, 2023Updated 3 years ago
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Feb 17, 2016Updated 10 years ago
- EMIRGE reconstructs full length ribosomal genes from short read sequencing data.☆38Sep 15, 2023Updated 3 years ago
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- 16S rRNA database☆13Nov 29, 2018Updated 7 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Tool for analysing viral diversity from High Throughput Sequencing☆12Nov 20, 2025Updated 11 months ago
- CAMITAX: Taxon labels for microbial genomes☆32Dec 14, 2023Updated 2 years ago
- Simple and crude scripts that I've written for my own work that may be of help to others with similar tasks☆12Jun 16, 2020Updated 6 years ago
- Convert QIIME files into Oligotyping subsets.☆15Dec 10, 2014Updated 11 years ago
- Mostly useful scripts and files for processing MiSeq amplicon data☆20Jul 1, 2016Updated 10 years ago
- Extremely accurate algorithm used to group DNA sequences from microbial communities into operational taxonomic units (proxy for species) …☆14Nov 20, 2018Updated 7 years ago
- Confirming specific taxonomic groups within your samples.☆19Dec 21, 2020Updated 5 years ago
- PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…☆25Feb 25, 2023Updated 3 years ago
- Simulate metagenomic short reads from one or more populations.☆26Jan 29, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Clustering cONtigs with COverage and ComposiTion☆140Mar 6, 2020Updated 6 years ago
- Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.☆49May 25, 2021Updated 5 years ago
- Tool for visualising assemblies.☆17Sep 15, 2015Updated 11 years ago
- A simple script to display stuff on a world map with R and ggplot☆18Feb 17, 2026Updated 8 months ago
- Generate mutated sequence files from a reference genome.☆11Oct 14, 2026Updated 3 weeks ago
- ☆14Dec 12, 2017Updated 8 years ago
- abawaca is a binning program for metagenomics☆13May 20, 2017Updated 9 years ago
- Small utilities for working with fastq sequence files.☆123Oct 4, 2022Updated 4 years ago
- A tutorial for Metagenome-Atlas☆23Nov 24, 2023Updated 2 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.
- Strain resolved metagenome simulator☆13Aug 11, 2018Updated 8 years ago
- Statistical Analysis of Metagenomic Profiles☆93Sep 21, 2026Updated last month
- Statistical analysis for sparse high-throughput sequencing☆77Dec 17, 2024Updated last year
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 10 months ago
- AXIOME - Automation, Extension, and Integration Of Microbial Ecology: Helper tools to make managing numerical ecology pipelines easier☆13Jun 20, 2014Updated 12 years ago
- Schloss Lab Tools for Reproducible Microbiome Research 💩☆32Aug 22, 2023Updated 3 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 6 years ago