Data & Code: "Bacterial diversity in the waterholes of the Kruger National Park: an eDNA metabarcoding approach"

Name: Data & Code: "Bacterial diversity in the waterholes of the Kruger National Park: an eDNA metabarcoding approach"
Creator: figshare
Published: 2020-08-28 09:43:27
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DataCite Commons2020-08-28 更新2024-07-27 收录

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Data and code to reproduce: Farrell, M.J., Govender, D., Hajibabaei, M., van der Bank, M., Davies, T.J. (2018) "Bacterial diversity in the waterholes of the Kruger National Park: an eDNA metabarcoding approach", Genome doi: 10.1139/gen-2018-0064 Scripts1. DADA2 pipeline for quality filtering, denoising, chimera removal, ASV calling, and taxonomy assignment (dada2_pipeline.R)2. Build phylogeny (build_phylo.R) - R script with system calls to QIIME and FastTree3. Community and biodiversity analyses (community_analyses.R) Required DataThe community analyses can be reproduced with the data files included here. To reproduce the DADA2 pipeline and phylogeny building, the raw sequence reads are archived in the NCBI Sequence Read Archive: BioProject PRJNA490450Accessuib numbers SRR7822814 to SRR7822901 In addition you will need the DADA2 formatted training fasta files for SILVA version 128 (https://zenodo.org/record/801832#.W5_UPPMbCEI) and the SILVA 128 release for QIIME (https://www.arb-silva.de/download/archive/qiime/)

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figshare

创建时间：

2018-11-30

Data &amp; Code: "Bacterial diversity in the waterholes of the Kruger National Park: an eDNA metabarcoding approach"

Data & Code: "Bacterial diversity in the waterholes of the Kruger National Park: an eDNA metabarcoding approach"