yphsieh / 16S-ITGDBView external linksLinks
An integrated database for improving taxonomic classification of 16S Ribosomal RNA sequences.
☆19May 30, 2023Updated 2 years ago
Alternatives and similar repositories for 16S-ITGDB
Users that are interested in 16S-ITGDB are comparing it to the libraries listed below
Sorting:
- PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes☆25Dec 4, 2023Updated 2 years ago
- Genome-informed, trait-based dynamic energy budget modeling of microbes with ML analysis of emergent strategies☆16Updated this week
- Fit LOg-RAtio Lasso regression for compositional covariates☆15Updated this week
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Dec 14, 2022Updated 3 years ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated last year
- Various scripts for efficient processing of 10k Salmonella genomes☆16Sep 16, 2021Updated 4 years ago
- Updated Kraken DB install scripts to cope with new-ish NCBI structure☆14Jan 25, 2020Updated 6 years ago
- Kraken2 Server☆23Nov 24, 2025Updated 2 months ago
- Generate Galaxy tool descriptions automatically from QIIME 2 actions.☆20Jan 27, 2026Updated 2 weeks ago
- simple program to rotate a circular sequence to start at a given position or string☆19Jul 9, 2023Updated 2 years ago
- A set of tools to analyse the output from TraDIS analyses☆24Aug 8, 2023Updated 2 years ago
- Code for detecting genomic island insertions in clades of microbes.☆19Sep 14, 2023Updated 2 years ago
- Bioinformatics curated workflows that use Biocontainers tools☆19Jun 11, 2019Updated 6 years ago
- Maximum Likelihood Amplicon Pipeline☆22May 22, 2024Updated last year
- Deepurify is a tool to filter the contaminated contigs in a MAG with a language model.☆23Jun 3, 2025Updated 8 months ago
- Calculate confidence scores from Kraken2 output☆23Feb 18, 2024Updated last year
- distance based phylogenetic placement☆27Feb 28, 2024Updated last year
- sunburst plots for taxonomy - working to update Krona☆44Sep 22, 2025Updated 4 months ago
- More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original☆51Aug 17, 2022Updated 3 years ago
- Calculate assocations between genes and traits☆29Mar 10, 2025Updated 11 months ago
- Scripts for Hill et al. (2022) doi:10.1093/molbev/msac085 🟣☆11Apr 28, 2023Updated 2 years ago
- A fast and scalable phylogenetic tree viewer for microbiome data analysis☆55Aug 4, 2024Updated last year
- A reference viral database (RVDB)☆26Nov 30, 2018Updated 7 years ago
- Whole Exome/Whole Genome Sequencing alignment pipeline☆30Sep 18, 2024Updated last year
- A phylogeny dating method using least-squares algorithms and criteria☆32Oct 25, 2024Updated last year
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆72Jul 31, 2025Updated 6 months ago
- A genome diagram generator for microbes and organelles☆57Updated this week
- The CGView Comparison Tool (CCT) is a package for visually comparing bacterial, plasmid, chloroplast, and mitochondrial sequences.☆38Apr 13, 2024Updated last year
- Example of SGTK application for E.coli dataset:☆31Jul 13, 2020Updated 5 years ago
- A tool to extract and annotate genes from raw RNA-seq reads.☆10Dec 20, 2024Updated last year
- Final repository for the project "Unsupervised Machine Learning for the Classification of Astrophysical X-ray Sources". V. S. Pérez-Díaz,…☆10Jan 23, 2024Updated 2 years ago
- My R scripts, primarily R plotting scripts + some genomics software including 16S rRNA metataxnomics and RNAseq☆12Dec 19, 2022Updated 3 years ago
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆92Jul 10, 2025Updated 7 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆366Aug 1, 2025Updated 6 months ago
- Dyne.org's W3C-DID implementation☆12May 16, 2024Updated last year
- Minimum Bait Cover Toolkit Syotti.☆13Jan 22, 2025Updated last year
- Create three instances in Oracle Cloud Infrastructure using Terraform 0.12 dynamic blocks☆11May 24, 2020Updated 5 years ago
- ☆11Apr 5, 2021Updated 4 years ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated last month