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atavide_lite Public
A simpler version of atavide that relies only on slurm or PBS scripts. Some of the settings maybe specific for our compute resources
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kingfisher-download Public
Forked from wwood/kingfisher-downloadEasier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.
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pawsey Public
Code for running lots of different things on pawsey. This is a bit of a generic bucket and some of the code will be duplicated elsewhere in different projects
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genetic_codes Public
Python code for translating sequences using different NCBI translation tables and genetic codes.
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EdwardsLab Public
Code from the Edwards lab, including bioinformatics, image analysis and more. All this code is created and maintained by folks at Rob Edwards' bioinformatics lab at Flinders University
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pytaxonkit Public
Forked from bioforensics/pytaxonkitPython bindings for the TaxonKit library
Python Other UpdatedApr 11, 2025 -
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blue-crab Public
Forked from Psy-Fer/blue-crabcrab go snap snap
Python MIT License UpdatedApr 3, 2025 -
slorado Public
Forked from BonsonW/sloradoA simplified version of Dorado built on top of S/BLOW5 format.
C++ Other UpdatedMar 31, 2025 -
sphae Public
Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!
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MMseqs2 Public
Forked from soedinglab/MMseqs2MMseqs2: ultra fast and sensitive search and clustering suite
C MIT License UpdatedMar 19, 2025 -
awesome-virome Public
Forked from shandley/awesome-viromeA listing of software, tools and databases useful for virome analysis
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PawseySummer2024 Public
Code and ideas for the Pawsey summer internship 2024, designing CNNs for segmented viruses
Jupyter Notebook MIT License UpdatedMar 10, 2025 -
BV-BRC-CLI Public
Forked from BV-BRC/BV-BRC-CLIThe BV-BRC Command Line Interface
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vamb_abundance_profile Public
Create an abundance profile table from vamb
Python MIT License UpdatedFeb 15, 2025 -
atavide Public
Atavistic processing of metagenomics data.
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ComputationalGenomicsManual Public
Robs manual for the computational genomics and bioinformatics class.
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bangers Public
Convert protein sequences to DNA sequences to make them compatible with mash
C MIT License UpdatedNov 6, 2024 -
SUPER-FOCUS Public
Forked from metageni/SUPER-FOCUSA tool for agile functional analysis of shotgun metagenomic data
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FOCUS Public
Forked from metageni/FOCUSA model to identify organisms present in metagenomes in seconds
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PhiSigns Public
PhiSiGns is a web-based and standalone application that provides a simple and convenient tool to identify signature genes and design primers for PCR amplification of related genes from environmenta…
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PhageProteomicTree Public
The phage proteomic tree was a breakthrough in evolution, taxonomy, and phylogenetics ... but nobody realized its global importance
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reneo Public
Forked from Vini2/reneo🦠🧬 Unraveling Viral Genomes from Metagenomes
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Phynteny Public
Forked from susiegriggo/PhyntenyPredict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny
PureBasic MIT License UpdatedAug 30, 2024 -
CompareReferences Public
Compare References from Google Scholar and ORCID
Python MIT License UpdatedAug 25, 2024 -
repeatfinder Public
fast code for searching for direct and indirect repeats in DNA sequences.
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hecatomb Public
Forked from shandley/hecatombhecatomb is a virome analysis pipeline for analysis of Illumina sequence data
Python MIT License UpdatedJun 6, 2024 -
bioconda-recipes Public
Forked from bioconda/bioconda-recipesConda recipes for the bioconda channel.
Shell MIT License UpdatedJun 4, 2024 -
hecatomb-documentation Public
Forked from beardymcjohnface/hecatomb-documentationDocumentation for Hecatomb (https://github.com/shandley/hecatomb)
MIT License UpdatedJun 3, 2024
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