Data & Code Supplement for "Environmental DNA as a management tool for tracking artificial waterhole use in savanna ecosystems"
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Updated
Aug 9, 2022 - R
Data & Code Supplement for "Environmental DNA as a management tool for tracking artificial waterhole use in savanna ecosystems"
Supplementary files for the paper "Environmental DNA metabarcoding of Danish soil samples reveals new insight into the hidden diversity of eutardigrades in Denmark"
This repository contains 18S reference sets that can be used with the RDP Classifier to classify 18S rDNA metabarcode sequences.
Public repository of data and analyses from Dirks and Jackson (2020), "Community structure of Arbuscular Mycorrhizal Fungi in Soils of Switchgrass Harvested for Bioenergy", Applied and Environmental Microbiology 86 (19)
A collection of singularity recipies for bioinformatic pipelines.
Shiny app that creates files used by the OBITools to demultiplex metabarcoding sequences
Master 1 project of 4 students at Institut Agro Montpellier in collaboration with a research lab for population biology and management (CBGP) in Montpellier
taxalogue - a toolkit to create comprehensive CO1 reference databases
Analysis of the effect of forestry cutting methods on ectomycorrhizal communities in boreal pine and spruce forest, using metabarcoding methods
Scripts for paper Vaulot et al. 2022
Dr Marion Couëdel's personal website
The purpose of this repository is the metagenomic analysis of FastQ files
Supplementary files for Ribeiro et al. ISME 2018
Datasets and code used to create figures in "Hajibabaei et al., 2019. Watered-down biodiversity? A comparison of metabarcoding results from DNA extracted from matched water and bulk tissue biomonitoring samples. PLoS ONE 14(12): e0225409."
Metabarcoding analysis pipeline, using DADA2 and qiime2
A primary goal of this research was to characterize vent plume biogeography across a spatial gradient. This study was done in collaboration with OceanX during the 2021 Young Explorers Program.
Trimming Sanger sequencing reads by quality
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