leitemfa Goto Github PK

2022-09-26-ds-dl-intro

Introduction to Deep Learning workshop

afs_microbiome

This repository contain the scripts used to the paper: Microbiome resilience of Amazonian forests: secondary succession convergence to fungi and agroforest divergence to bacteria

atlas

ATLAS - Three commands to start analysing your metagenome data

cbfm

Spatio-temporal joint species distribution modeling using community-level basis functions

daa

Code and Data in manuscript: A comprehensive evaluation of microbial differential abundance analysis methods: current status and potential solutions

dada2_custom_fungal

dataumbrella22-intro-pytorch

Code for Data Umbrella Talk "Intro to PyTorch and LightningLite

differential-abundance-theory

A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.

dmg-symposium

In this repository, you will find the references used in my presentation for the DMG symposium “Practical applications of metagenomics towards typing”. The title of my presentation is You must choose, but choose wisely: Model-based approaches for microbial community analysis and data integration.

dtmm

Dirichlet-tree Multinomial Mixtures

dtmm_reproducible

fishtaco

FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of microbiome functional shifts

forestexplorr

gdm_script

Script for performing GDM analysis

gjam-promise

A repository of the GJAM analysis performed for the PROMISE project.

gllvm

Generalized Linear Latent Variable Models

glmms_workflow

This space will be used to maintain the script and functions file associated with the paper "A versatile workflow for linear modelling in R" published in Frontiers of Ecology and Evolution.

graphbio

GraphBio: a shiny web app to easily perform popular visualization analysis for omics data

gromovmatcher

Automated Alignment of Untargeted Metabolic Datasets with Optimal Transport

hmsc

Hierarchical modelling of species community

intro_spatialr

Introduction to GIS and mapping in R with the sf package

jsdm

R package for joint species distribution models

juliaprogrammingfornervousbeginners

A course for people who are hesitant but curious about learning to write code in Julia.

leitemfa.github.io

My personal website

microbiome-friday-2023-09-08

In this repository, you will find the references used in my presentation for the Microbiome Friday. The title of my presentation is The data essence is not invisible to the eyes: exploring microbiome data through the lens of model-based approaches.

mvgam

Bayesian Generalised Additive Models for discrete time series

nifhdada2

dada2 formatted nifH database

picrust2_ml

Code, unit tests, and tutorials for running PICRUSt2

pysr

High-Performance Symbolic Regression in Python

r

R tests