Data and code from: Cover crop and crop rotation effects on tissue and soil population dynamics of Macrophomina phaseolina and yield in no-till system

This dataset contains all code and data necessary to reproduce the analyses in the manuscript:

Mengistu, A., Read, Q. D. Cover crop and crop rotation effects on tissue and soil population dynamics of Macrophomina phaseolina and yield in no-till system. (Citation will be updated upon final acceptance of manuscript)

The .zip archive cropping-systems-0.0.zip contains data and code files.

Data

Quentin combined data with Yld 2011-2015.xlsx: MS Excel spreadsheet with all data averaged by experimental plot
Fred Allen combined data with Yld 2011-2015.xlsx: MS Excel spreadsheet with data at the individual plant level

Code

cropping_system_analysis_v2.1.Rmd: RMarkdown notebook with the majority of the data processing, analysis, and visualization code
marginal_means_byyear.Rmd: RMarkdown notebook with additional analyses producing estimated marginal means for individual years
equations.Rmd: RMarkdown notebook with formatted equations
formatted_figs.R: R script to produce figures formatted exactly as they appear in the manuscript

The Rproject file cropping-systems.Rproj is used to organize the RStudio project. Scripts and notebooks used in older versions of the analysis are found in the testing/ subdirectory.

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Archived git repository containing all necessary data and codezip
This contains all necessary data and code needed to reproduce the analyses...
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Field	Value
Tags	soybean Glycine max Macrophomina phaseolina charcoal rot crop rotation cover crops soybean yield NP303
Modified	2022-10-14
Release Date	2022-10-14
Identifier	64dbf38d-22b0-4bce-9944-baf1db5b94e1
Spatial / Geographical Coverage Area	POINT (-88.72719 35.93451)
Publisher	Ag Data Commons
Spatial / Geographical Coverage Location	Milan Research and Education Center, Milan, Tennessee, USA
Temporal Coverage	January 1, 2011 to December 31, 2015
License	U.S. Public Domain
Contact Name	Read, Quentin
Contact Email	quentin.read@usda.gov
Public Access Level	Public
Program Code	005:040 - Department of Agriculture - National Research
Bureau Code	005:18 - Agricultural Research Service

Extended Metadata:

Field	Value
Authors	Mengistu, Alemu (ORCID) Read, Quentin D. (ORCID)
Peer Reviewed	No
Intended Use	The data and code presented here reproduce data processing, statistical analysis including linear mixed-effects models and post hoc comparisons of estimated marginal means for hypothesis testing, and visualization of results including graphs and tables. All analysis from the manuscript is included.
Use Limitations	The data and code presented here are only for reproducing the analyses in the cited manuscript and would require modification to be applied to new input data.
Equipment or Software Used	R version 4.1.2
Funding Sources	Agricultural Research Service 6066-21220-013-00D
Dataset DOI (digital object identifier)	10.15482/USDA.ADC/1528086
Product Type	Dataset

Field	Value
OSTI Identifier
ISO Topic(s)	environment farming
State or Territory	Tennessee
National Agricultural Library Thesaurus Term	cover crops crop rotation soil population dynamics Macrophomina phaseolina no-tillage soybeans Glycine max charcoal rot crop yield Tennessee computer software data visualization
Ag Data Commons Keywords	Agroecosystems & Environment Soil Agroecosystems & Environment Microbial ecology Agroecosystems & Environment Agricultural pests Agroecosystems & Environment Plants & Crops Crop production Tillage Plants & Crops Crop production Cropping system Plants & Crops Crop production Plants & Crops

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Data Extent