broadinstitute / GATK-for-MicrobesView external linksLinks
☆29Sep 28, 2021Updated 4 years ago
Alternatives and similar repositories for GATK-for-Microbes
Users that are interested in GATK-for-Microbes are comparing it to the libraries listed below
Sorting:
- EzAAI - High Throughput Prokaryotic AAI Calculator☆46Feb 5, 2026Updated last week
- Splitting and accelerating the Oxford Nanopore basecaller guppy using CPU with the SLURM job scheduler☆16Jul 1, 2024Updated last year
- ☆18Nov 7, 2025Updated 3 months ago
- A smorgasbord of R functions for performing and teaching population genomic analyses☆19Jan 26, 2026Updated 3 weeks ago
- Variant call adjudication☆16Jun 13, 2024Updated last year
- Minimal but speedy quality control for nanopore reads in Rust☆137Sep 16, 2024Updated last year
- Antibiotic resistance prediction in minutes☆114Nov 24, 2024Updated last year
- Msuite2: integrated DNA methylation data analysis toolkit with enhanced performance☆10Jan 21, 2025Updated last year
- Analysis tool for Nanopore sequencing data☆11Apr 26, 2024Updated last year
- Scaffolding with assembly likelihood optimization☆21Dec 14, 2020Updated 5 years ago
- Feature Aggregate Depth Utility☆12Aug 20, 2024Updated last year
- Rapid estimation of phylogenetic trees using sketching☆13Feb 18, 2025Updated 11 months ago
- sunburst plots for taxonomy - working to update Krona☆44Sep 22, 2025Updated 4 months ago
- Calculate assocations between genes and traits☆29Mar 10, 2025Updated 11 months ago
- Identify short variants and structural variants from raw sequencing data or genomic sequences☆34Mar 27, 2024Updated last year
- A scalable bacterial genome assembly, annotation and analysis pipeline☆74Dec 5, 2023Updated 2 years ago
- Tool for analysing viral diversity from High Throughput Sequencing☆12Nov 20, 2025Updated 2 months ago
- A Nextflow pipeline for genome and pan-genome annotation☆15Feb 3, 2026Updated 2 weeks ago
- Generate mutated sequence files from a reference genome.☆11Dec 26, 2022Updated 3 years ago
- A pipeline for scRNA analysis under HPC☆11Jul 15, 2024Updated last year
- QuickProt: A Fast and Accurate Homology-Based Protein Annotation Tool for Non-Model Organisms to Advance Comparative Genomics☆16Jan 12, 2026Updated last month
- ☆82Nov 27, 2025Updated 2 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆34Jan 8, 2026Updated last month
- a Contig Alignment Tool for Pairwise Assembly Comparison☆12Dec 11, 2019Updated 6 years ago
- Scripts to split reference and run mummer in parallel on an SGE cluster☆11Oct 14, 2016Updated 9 years ago
- hs-blastn, a fast and accurate nucleotide-nucleotide sequences aligner.☆27Aug 12, 2020Updated 5 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆235Oct 12, 2025Updated 4 months ago
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago
- Convert vcf in parquet☆29Jan 23, 2025Updated last year
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆17Nov 24, 2025Updated 2 months ago
- Robust individual and aggregate checksums for nucleotide sequences☆17Feb 8, 2026Updated last week
- an open source data platform, developed in the Korcsmaros Group to store, analyze and integrate bioinformatics data☆12May 5, 2021Updated 4 years ago
- ☆16Jun 2, 2024Updated last year
- Origin of Chromosomal Replication Assessment. Python tool for the analysis of circular bacterial DNA sequences in order to find their ori…☆18Oct 10, 2025Updated 4 months ago
- ☆21Updated this week
- Hardware Accelerated Read Until☆17Sep 30, 2025Updated 4 months ago
- Nextflow DSL2 pipeline to generate data for a BlobToolKit analysis. This workflow is part of the Tree of Life production suite.☆15Updated this week
- Host depletion optimised for clinical metagenomic sequencing applications☆16Nov 18, 2024Updated last year
- End-to-end simulation of nanopore sequencing signals with feed-forward transformers☆17Nov 17, 2025Updated 3 months ago