biocore / micronotaView external linksLinks
annotation pipeline for microbial genomes and metagenomes
☆18Feb 23, 2018Updated 7 years ago
Alternatives and similar repositories for micronota
Users that are interested in micronota are comparing it to the libraries listed below
Sorting:
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Just another minhash implementation.☆12Updated this week
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance☆22Mar 8, 2024Updated last year
- exploratory and interactive microbiome analyses based on heatmaps☆27Jan 27, 2025Updated last year
- ☆16May 22, 2023Updated 2 years ago
- Python bindings for the TaxonKit library☆43Feb 2, 2026Updated last week
- Repository of the integrated mouse gut metagenomic catalog☆20Mar 14, 2022Updated 3 years ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 3 months ago
- Bacterial genomes finishing tool for structural insights on draft genomes☆23Sep 22, 2023Updated 2 years ago
- Annotate sequences from BLAST against KEGG DB with KO numbers and summarize them in KEGG modules.☆22Dec 27, 2018Updated 7 years ago
- Python scripts for Exploratory Data Analysis of Pacific Biosciences sequence data☆18Aug 13, 2014Updated 11 years ago
- Tool for finding matches to degenerate sequence motifs in FASTA files.☆13Mar 11, 2024Updated last year
- Pipeline to generate NGS reads from a phylogeny☆39Sep 13, 2022Updated 3 years ago
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 years ago
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆40Nov 14, 2025Updated 3 months ago
- Code for Shipman et al. 2017☆13Jul 12, 2017Updated 8 years ago
- Namespace encoding hierarchical relationships between proteins, protein families, and protein complexes.☆12Mar 9, 2021Updated 4 years ago
- abi2fastq is a small utility to convert Sanger sequencing reads in .abi (applied biosystems) format to FASTQ☆11Sep 19, 2017Updated 8 years ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆12Jun 30, 2023Updated 2 years ago
- renders a KEGGML file and displays a KEGG pathway☆10Jul 14, 2016Updated 9 years ago
- Our laboratory repository☆11Jan 12, 2021Updated 5 years ago
- 🦠🧬 Unraveling Viral Genomes from Metagenomes☆10Oct 3, 2025Updated 4 months ago
- An automated post sequencing data processing pipeline for Illumina HiSeq☆14Aug 28, 2025Updated 5 months ago
- Feature Aggregate Depth Utility☆12Aug 20, 2024Updated last year
- A flexible python program for generating figures from regions of the genome.☆13Apr 6, 2019Updated 6 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.☆30Feb 3, 2026Updated last week
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago
- Convert GFF file to GenBank file format while extracting the sequences between the annotated regions☆14Sep 6, 2023Updated 2 years ago
- A taxonomic classifier for shotgun metagenomics reads☆11Apr 4, 2025Updated 10 months ago
- A nextflow version of the Wochenende reference metagenome binning and visualization pipeline☆15Dec 14, 2024Updated last year
- In silico serotyping, finetyping and Bexsero antigen sequence typing of Neisseria meningitidis☆14Feb 2, 2025Updated last year
- Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples☆12May 19, 2021Updated 4 years ago
- (Deprecated) Ansible roles to configure assorted compontents for an Ubuntu VM or container configured with https://github.com/galaxyproje…☆11Nov 9, 2024Updated last year
- Fast Approximate Pattern Matching using Search Schemes☆16Jan 14, 2026Updated last month
- localised duplicate detection on patterned flow cells☆10Feb 27, 2019Updated 6 years ago
- The genome annotation service provides automated gene annotation based on the RAST system. This deploys both client and service component…☆11Sep 22, 2020Updated 5 years ago
- Manipulate genomic features and validate the syntax and reference sequence of your GFF3 files☆10Dec 26, 2022Updated 3 years ago
- Genome guided re-segmention and visualization for raw nanopore sequencing data.☆47Dec 20, 2018Updated 7 years ago