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Bioinformatics tutorials
The bioinformaticians of the Core Bioinformatics team at the Quadram Institute Bioscience curates this blog with tutorials and hands-out for microbial genomics training.
Using Micromamba
Micromamba is a fast, lightweight version of the Mamba package manager. Unlike Miniconda, it comes as a single executable with no default Python installation or...
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Removing custom hosts from metagenomics
Hostile is a fantastic tool for removing host reads from whole metagenome shotgun datasets. It’s very user-friendly and has pre-built databases for human and murine reads decontaminating.
UV: A Fast Package Manager for Python
As a bioinformatician, you likely use Python packages like BioPython, scanpy, or scikit-bio. Installing and managing these packages has traditionally been done with pip or conda, but these tools can...
Compositional Data Analysis for Microbiome Studies
Microbiome data is inherently compositional - the counts we obtain from sequencing provide information about the relative abundance of taxa, not their absolute abundance in the original sample. This has...
