Processing NEON soil microbe marker gene sequence data into ASV tables.
Data and R analysis (diversity indices, PCA, correlation & chord networks) for metolachlor phytoremediation soil-microbiome metagenomics — JoX 2024 (DOI 10.3390/jox14030054)
Data and reconstructed R analysis (diversity indices, PCA, correlation networks) for sulfentrazone phytoremediation by Avena sativa — JoX 2025 (DOI 10.3390/jox15030087)
neonMicrobe: Processing NEON soil microbe marker gene sequence data into ASV tables, duplicated from https://github.com/claraqin/neonMicrobe
Script for analyzing metabolic data
Microbiome analysis pipeline with reference tutorial. This code was written in October 2024 to process rRNA marker gene data (16S and ITS) from rhizosphere soil samples.
Adaption of Section 2 of Norgen's Soil DNA Isolation Kit. It was divided into 3 protocols, but feel free to wrap up (just pay attention to the number of tip racks). Recalibrate each time you are running the protocols (specially before the 3rdprotocol)
The R-Shiny application for the Australian Soil Microbial 16S data browsing.
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