Alma Hernández de Rojas's repositories
adv-r
Advanced R: a book
awesome-nanopore
A curated list of awesome nanopore analysis tools.
blogdown
Create Blogs and Websites with R Markdown
dada2_guidelines
A repository with a general dada2 pipeline for amplicon processing
dorado
A LibTorch Basecaller for Oxford Nanopore Reads
EasyAmplicon
Easy Amplicon data analysis pipeline
EasyMicrobiomeR
Using R language in microbiome analysis
ggpicrust2
Make Picrust2 Output Analysis and Visualization Easier
glmmTMB
glmmTMB
longitudinal_data_analysis
Scripts for the analysis of longitudinal data in R
mia
Microbiome analysis
MicrobiomeStat
Supporting Longitudinal Microbiome Analysis in R
MicrobiomeStat-Shiny
A Shiny interface for the MicrobiomeStat R package, designed to facilitate analysis and visualization of microbiome data.
microViz
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
MiFish
This is the command line version of MiFish pipeline. It can also be used with any other eDNA meta-barcoding primers
mitohelper
Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies
MitoZ
MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
mpsepi
Microbiota Process and Visualization pipeline based on the MicrobiotaProcess R Package
NanoR
Nanopore data analysis in R
OMA
Orchestrating Microbiome Analysis
paletteer
🎨🎨🎨 Collection of most color palettes in a single R package
q2-longitudinal
QIIME 2 plugin for paired sample comparisons
qiime2R
Import qiime2 artifacts to R
rmarkdown-book
R Markdown: The Definitive Guide (published by Chapman & Hall/CRC in July 2018)
rmarkdown-cookbook
R Markdown Cookbook. A range of tips and tricks to make better use of R Markdown.
treeio
:seedling: Base Classes and Functions for Phylogenetic Tree Input and Output