A genome visualization python package for comparative genomics
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Updated
May 26, 2024 - Python
A genome visualization python package for comparative genomics
Build a partitioned pangenome graph from microbial genomes
Functions to simplify and standardise antimicrobial resistance (AMR) data analysis and to work with microbial and antimicrobial properties by using evidence-based methods, as described in https://doi.org/10.18637/jss.v104.i03.
Microbial Community Analysis with Chipster
The Pseudobatch transformation is a method to easy analysis of measurement from a fed-batch fermentation process. After transformation, the data can be analysed as if it was obtained from a batch fermentation process. The Pseudobatch transformation is especially useful for fed-batch processes where samples where drawn from the bioreactor.
Geochemistry pipeline for processing and visualising data from IRMS, IC and ICP-MS
A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.
Antimicrobial Resistance Test Interpretation Engine
Rapidly extract a flexible bacterial core genome alignment
A tool for phylogenetic comparison and analysis of microbe including gene's environmental association
A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.
Code for the website of the ERC CoEvolve project
A simple python plasmid map creator
dar: runs multiple differential abundance analysis methods and through a consensus strategy returns a set of differentially abundant features.
GuideMaker: Software to design CRISPR-Cas guide RNA pools in non-model genomes
A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches
Automatically count colonies from a photo of your Petri dish
A novel ML-based binary classifier to tell viral and non-viral long reads apart in metagenomic samples.
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