GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
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Jun 12, 2025 - Python
✂️ ⚡ Rapid haploid variant calling and core genome alignment
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Jul 19, 2024 - Perl
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
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Mar 11, 2025 - Python
Build a partitioned pangenome graph from microbial genomes
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Jun 11, 2025 - Python
Pan-genome wide association studies
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May 29, 2024 - Python
BSR-Based Allele Calling Algorithm
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Apr 16, 2025 - HTML
💾 📃 "Reads to report" for public health and clinical microbiology
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Mar 19, 2024 - Perl
SEER, reimplemented in python 🐍🔮
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May 22, 2025 - Python
Hardware and software for accessible, extensible, and scalable bioreactors. Built on Raspberry Pi.
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Jun 14, 2025 - Python
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
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Jan 22, 2025 - Python
GET_HOMOLOGUES: a versatile software package for pan-genome analysis
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Mar 3, 2025 - Perl
A bioinformatic toolkit to align genome assemblies into pangenome graphs
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Jun 11, 2025 - C
PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)
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Jun 12, 2025 - Python
A scalable bacterial genome assembly, annotation and analysis pipeline
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Dec 5, 2023 - Groovy
A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima
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Sep 30, 2020 - Python
🦠📇 Microbial genomes-to-report pipeline
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Jun 14, 2025 - Python
A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.
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Jul 12, 2022
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