Bacterial taxonomy construction and evaluation in R
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Updated
Jan 30, 2024 - R
Bacterial taxonomy construction and evaluation in R
Inofficial R client for the DSMZ's Bacterial Diversity Metadatabase (former contact: @katrinleinweber). https://api.bacdive.dsmz.de/client_examples seems to be the official alternatives.
Bacterial Epigenomics Analysis SuiTe
Simulate pangenomes according to the IMG + Neutral models
Groundwater flow and microbes transport modelling with R and Modflow / Modpath
Code and data for my scientific publications
Predicts bacterial resistome
Repository dedicated to the experiment section of the paper: Revisiting pangenome openness with k-mers. PCJ Math & Comp Biol. (2024).
MegaVir is a bioinformatic pipeline for virome characterization and genome assembly.
Code and raw data for *Galaxea fascicularis* microbiome data analysis
CGR package for phylogeny. Pipeline compare multiple whole genome sequences using alignment free approach Chaos Game Representation (CGR). CRG core function creates the frequencies object for each sequence which can be used to calculate distances among sequences.
Finding Tn-Seq Essential genes (FiTnEss)
AU microbiome molecular exploratory analyses for NSW
Full genome of E. coli, strain K12 MG1655
R-Scripts and Fiji-macro used for the construction of kymographs based on fluorescence profiles
Code used to produce results and figures for BA Pathology project on the prospects of a BCG vaccine program in Great Britain. Developed by Joanna Vieira O'Neill, University of Cambridge.
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