A post-processing tool to reclassify Kraken 2 output based on the confidence score and/or minimum minimizer hit groups.
☆11Nov 10, 2025Updated 7 months ago
Alternatives and similar repositories for StringMeUp
Users that are interested in StringMeUp are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆67Updated this week
- Toolkit for establishing, updating, and validating GTDB species clusters☆20Mar 23, 2026Updated 2 months ago
- deduplicate FASTA and FASTQ files☆23Feb 16, 2022Updated 4 years ago
- Searching large collections of sequencing data with genome-scale queries☆18May 26, 2026Updated 2 weeks ago
- Calculate confidence scores from Kraken2 output☆25Feb 18, 2024Updated 2 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.
- Summarize and filter read alignments from multiple sequencing samples (taken as sorted BAM files)☆18Oct 12, 2025Updated 7 months ago
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 5 months ago
- ☆18Nov 7, 2025Updated 7 months ago
- NCBI-style taxdump files for International Committee on Taxonomy of Viruses (ICTV)☆22May 3, 2025Updated last year
- ☆11Jul 3, 2022Updated 3 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆48Nov 9, 2022Updated 3 years ago
- Kraken2 Server☆23Nov 24, 2025Updated 6 months ago
- Read level DNA methylation analysis of bisulfite converted sequencing data☆19Feb 23, 2026Updated 3 months ago
- Nanopore SimulatION is a tool for simulating an Oxfornd Nanopore Technologies MinION device for bioinformatic development.☆19Nov 30, 2017Updated 8 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.
- ☆21Dec 15, 2020Updated 5 years ago
- ☆15Jun 26, 2025Updated 11 months ago
- An integrated pipeline for estimating strain-level genomic variation from metagenomic data☆135Oct 6, 2023Updated 2 years ago
- Clin-mNGS: Automated pipeline for pathogen detection from clinical metagenomic data☆19Jun 29, 2021Updated 4 years ago
- Python bindings for the TaxonKit library☆43Jun 1, 2026Updated last week
- Questions asked in PhD defences☆11Apr 30, 2024Updated 2 years ago
- viralComplete: BLAST-based viral completeness verification☆23Oct 4, 2021Updated 4 years ago
- DeepMicrobes: taxonomic classification for metagenomics with deep learning☆106Sep 17, 2022Updated 3 years ago
- Automatically calculate phylogenetic trees from bacterial core genes☆20May 28, 2026Updated last week
- 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.
- Workshop: Using R/tidyverse to analyze & visualize gapminder/processed transcriptomics data!☆13Sep 12, 2025Updated 8 months ago
- ☆19Jan 16, 2024Updated 2 years ago
- Hybrid method based on a variable-order de bruijn Graph for the error Correction of Long Reads☆11Jan 20, 2021Updated 5 years ago
- map Illumina metagenomes to genomes!☆39Jan 22, 2026Updated 4 months ago
- ☆11Feb 16, 2021Updated 5 years ago
- deSAMBA: fast and accurate classification of metagenomics long reads with sparse approximate matches☆12May 5, 2024Updated 2 years ago
- A collection of unexpected challenges and learnings with nextflow and nf-core.☆42Oct 17, 2023Updated 2 years ago
- call copy number from WES(WXS)☆11May 10, 2021Updated 5 years ago
- Functions to manipulate and visualize microbial community data☆12Sep 15, 2023Updated 2 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.
- Phylocom R interface☆15Apr 21, 2023Updated 3 years ago
- Neptune: Genomic Signature Discovery☆21May 1, 2026Updated last month
- ☆12Aug 6, 2025Updated 10 months ago
- A healthy human gut genome collection☆26Aug 21, 2025Updated 9 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆36Apr 26, 2026Updated last month
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes☆109May 23, 2025Updated last year
- A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets☆31Nov 9, 2025Updated 7 months ago