Statistical and Computational methods for Microbiome Studies.
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Updated
Oct 1, 2017 - R
Statistical and Computational methods for Microbiome Studies.
Primer scripts to produce meaningful visualisations from pre-processed metabarcoding data
Code associated with the following manuscript, currently in review: M.S. Fischer, N.J. Patel, P.J. De Lorimier, M.F. Traxler "Prescribed fire selects for a pyrophilous soil subcommunity in a northern California mixed conifer forest"
This repository contains R scripts for data analyses and visualization.
short-read amplicon data visualization suite
Tesis licenciatura "Metataxonómica de bacterias comoindicador de la descarga de xenobióticos por el Anillo de Cenotes en el sedimento de manglar rojo"
𝐛𝐚𝐫𝐛𝐚𝐜 is an R package designed for the 𝘦𝘹𝘵𝘳𝘢𝘤𝘵𝘪𝘰𝘯 of barcode sequences. It efficiently 𝘤𝘭𝘶𝘴𝘵𝘦𝘳𝘴 these sequences and provides functionality for the calculation and visualization of 𝘵𝘪𝘮𝘦 𝘴𝘦𝘳𝘪𝘦𝘴 trajectories of the barcoded data.
Metabarcoding pipeline
Repositorio de pipelines necesarios para analizar secuencias de amplicones illumina con mothur. Se incluyen análisis con asv de bacterias y de hongos (estos últimos poco explicados por Schloss en su SOP).
🌊 16S rRNA microbiome data analysis workflow using DADA2 and R on a high performance cluster using SLURM
Analysis for McLaren, Willis, and Callahan (2019)
Interactive application to explore various ecological diversity metrics
The importance of converting relative to absolute abundance in the context of microbial ecology: Introducing the user-friendly DspikeIn R package
R package MiscMetabar: Miscellaneous functions for metabarcoding analysis
Metagenomics calibration R package
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
Various functions for analysis of microbial community data
Tools for visualising microbial community amplicon data
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