Pinned Repositories
16s-qiime2
Analysis of microbiome samples in CWL using QIIME2
16S_rRNA_bacterial_communities_analysis
The set of scripts for programming language R for analyzing genetic and taxonomic diversity of bacterial communities received by metagenomic data of 16S rRNA
A-microbiologist-wants-to-compute
This repo collects the list of learning online resources related to microbiome computational science and tools.
adv-r
Advanced R: a book
AdvancedR
SIOB-296 Advanced R Programming
ampvis2
Tools for visualising amplicon data
An-Introduction-To-Applied-Bioinformatics
Interactive lessons in bioinformatics.
Analysis-of-community-composition
A set of scripts for analyzing the composition of a community of organisms using a package of vegan for the programming language R
analysis_of_microbiome_community_data_in_r
This is the source code for the "Analysis of Microbiome Community Data in R" ICPP 2018 workshop. The website is available at: https://grunwaldlab.github.io/analysis_of_microbiome_community_data_in_r/
POGO_ML_workshop_genomics
POGO 2019 Workshop on Machine Learning and Artificial Intelligence in Biological Oceanographic Observations
AHdeRojas's Repositories
AHdeRojas/adv-r
Advanced R: a book
AHdeRojas/awesome-nanopore
A curated list of awesome nanopore analysis tools.
AHdeRojas/blogdown
Create Blogs and Websites with R Markdown
AHdeRojas/Comparison_of_DA_microbiome_methods
AHdeRojas/dada2_guidelines
A repository with a general dada2 pipeline for amplicon processing
AHdeRojas/dorado
A LibTorch Basecaller for Oxford Nanopore Reads
AHdeRojas/EasyAmplicon
Easy Amplicon data analysis pipeline
AHdeRojas/EasyMicrobiomeR
Using R language in microbiome analysis
AHdeRojas/evident
AHdeRojas/ggpicrust2
Make Picrust2 Output Analysis and Visualization Easier
AHdeRojas/glmmTMB
glmmTMB
AHdeRojas/longitudinal_data_analysis
Scripts for the analysis of longitudinal data in R
AHdeRojas/mia
Microbiome analysis
AHdeRojas/Microbiome_analysis_in-_R
AHdeRojas/MicrobiomeStat
Supporting Longitudinal Microbiome Analysis in R
AHdeRojas/MicrobiomeStat-Shiny
A Shiny interface for the MicrobiomeStat R package, designed to facilitate analysis and visualization of microbiome data.
AHdeRojas/microViz
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
AHdeRojas/MiFish
This is the command line version of MiFish pipeline. It can also be used with any other eDNA meta-barcoding primers
AHdeRojas/mitohelper
Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies
AHdeRojas/MitoZ
MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
AHdeRojas/mpsepi
Microbiota Process and Visualization pipeline based on the MicrobiotaProcess R Package
AHdeRojas/NanoR
Nanopore data analysis in R
AHdeRojas/OMA
Orchestrating Microbiome Analysis
AHdeRojas/paletteer
🎨🎨🎨 Collection of most color palettes in a single R package
AHdeRojas/q2-longitudinal
QIIME 2 plugin for paired sample comparisons
AHdeRojas/qiime2R
Import qiime2 artifacts to R
AHdeRojas/rmarkdown-book
R Markdown: The Definitive Guide (published by Chapman & Hall/CRC in July 2018)
AHdeRojas/rmarkdown-cookbook
R Markdown Cookbook. A range of tips and tricks to make better use of R Markdown.
AHdeRojas/treeio
:seedling: Base Classes and Functions for Phylogenetic Tree Input and Output
AHdeRojas/UFold