vllorens Goto Github PK

basedocker

Base docker file to use in other projects

benchmark_microbiome_transformations

Code to reproduce the analyses from the paper "Benchmarking microbiome transformations favors experimental quantitative approaches to address compositionality and sampling depth biases"

cmsclassifier

covid19_respiratory_microbiome

Code accompanying the manuscript "Clinical practices underlie COVID-19 patient respiratory microbiome composition and its interactions with the host"

mdaw_hands_on_1_data_preprocessing

Hands-on #1 from the Microbiome Data Analysis Workshop (https://mdawo.meetinghand.com/)

mdaw_hands_on_2_data_normalization

Hands-on #2 from the Microbiome Data Analysis Workshop (https://mdawo.meetinghand.com/)

metaester

Simulate metatranscriptomics datasets

polyester

Bioconductor package "polyester", devel version. RNA-seq read simulator.

qmp

Quantitative Microbiome Profiling

syntheticgutcommunity

Code to reproduce the RNA-seq analysis from the paper "Mechanistic modeling identifies emergent behavior in a synthetic human gut community"

vllorens.github.io

Personal website of Veronica Llorens Rico

wc2019

Tutorial on modeling metabolic pathways with ODEs, from the EMBO Whole Cell Modeling summer school