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48 public repositories
matching this topic...
?? An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
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Jan 12, 2024
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Python
Tools for visualising microbial community amplicon data
Various functions for analysis of microbial community data
Super snazzy online phylogenetic tree viewer with automatic customization using simple, tab-separated text files.
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Apr 10, 2023
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HTML
creating hybrid-gene phylogenetic trees for diversity analyses
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Aug 23, 2022
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Python
Materials and presentation for the 2022 ISB Microbiome course.
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Jun 13, 2024
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Jupyter Notebook
Materials and presentation for the 2023 ISB Microbiome course.
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Jun 15, 2024
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Jupyter Notebook
??BEEM-Static: An R package for inferring microbial interactions based on Lotka-Volterra models
Comparative Metatranscriptomics Workflow
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Jul 9, 2020
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Python
Microbiome data simulator for power analysis
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Oct 5, 2023
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Jupyter Notebook
Environmental metagenomics, Spring 2022, Physalia Courses
Environmental metagenomics, Spring 2023, Physalia Courses
lake itag measurements over nineteen years
A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.
A metadata schema for the Minimum Information about Intermicrobial Interaction Data (MIIID) using LinkML
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Aug 14, 2023
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Python
Easy-to-use tool facilitating work with Mothur.
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Jul 20, 2020
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JavaScript
A simple package for simulations of microbial growth experiments with realistic sources of error.
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Mar 5, 2020
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Python
My personal research website
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Jun 15, 2023
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HTML
Pipepline for the standard quantification of microbial guilds from metagenomic samples.
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May 6, 2024
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Jupyter Notebook
Data and code for LaMartina et al., 2021
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