Additional sources of agricultural data

Kevin Wright

2021-01-11

Books

Die Landwirtschaftlichen Versuchs-Stations

https://catalog.hathitrust.org/Record/000549685

Full view of research station reports 1859-1920. In German.

D. F. Andrews and A. M. Herzberg (1985). Data.

https://www2.stat.duke.edu/courses/Spring01/sta114/data/andrews.html

Table  2.1: agridat::darwin.maize 
Table  5.1: agridat::broadbalk.wheat 
Table  6.1: agridat::mercer.wheat.uniformity 
Table  6.2: agridat::wiebe.wheat.uniformity 
Table 58.1: agridat::caribbean.maize

D. Bayisa (2010). Application of Spatial Mixed Model in Agricultural Field Experiment.

Master thesis. Department of Statistics, Addis Ababa University. One dataset from wheat, RCB, with field coordinates.

M. N. Das & Narayan C. Giri (1987). Design and Analysis of Experiments.

 31 wool from 24 ewes, 6 cuttings
116 grass NPK factorial, 3 years, 36 obs
116 2^5 factorial, 1 rep, 32 obs
117 2^3 factorial, 3 rep
117 sugar beet 3^3 factorial, 2 rep, 54 obs
139 alfalfa 3x2^2 factorial
149 cabbage NPK split-plot, xy, 2 rep, 108 obs
150 soybean nitro-variety split-plot
193 wheat variety inc block, 9 block
201 rice variety balanced lattice, 80 obs
279 maize covariate, yield & plant count, 4 rep, 32 obs

Peter Diggle, Patrick Heagerty, Kung-Yee Liang, Scott Zeger. Analysis of Longitudinal Data.

https://faculty.washington.edu/heagerty/Books/AnalysisLongitudinal/datasets.html

Pig weight data is found in SemiPar::pig.weights

Sitka spruce data is found in: geepack::spruce

Milk protein data is found in: nlme::Milk. A thorough description of this data can be found in Molenberghs & Kenward, Missing Data in Clinical Studies, p. 377. Original source: A. P. Verbyla and B. R. Cullis, Modelling in Repeated Measures Experiments. https://www.jstor.org/stable/2347384

Federer, Walt (1955). Experimental Design.

192 3x3 factorial 
204 3x2 factorial 
236 2x2x2 factorial with confounding 
257 2x3x2 factorial with confounding 
276 split-plot with layout 
285 nested multi-loc (Also problems page 22) 
350 cubic lattice 
420 balanced inc block 
491 Latin square with covariate

Finney 1972. An Introduction to Statistical Science in Agriculture.

Small, mostly simulated data.

Galwey, N.W. (2014). Introduction to Mixed Modelling, 2nd ed.

https://www.wiley.com/WileyCDA/WileyTitle/productCd-1119945496.html

 2  83 variety x nitro split-plot - agridat::yates.oats
 3 104 doubled-haploid barley
 3 135 wheat/rye competition, heritability
 5 190 chickpea flowering in families
 7 250 canola oil gxe, sowing date, rainfall, oil.  Si & Walton 2004.
 7 284 pig growth, 4 diets
 7 285 sheep milk fat and lactose
 7 290 wheat anoxia root porosity, 9 gen
 7 291 wool fibers, 3 trt, 21 animals
 9 370 alphalpha design (row-column inc block), xy
10 434 hollamby wheat trial, xy - agridat::gilmour.serpentine

O.V.S. Heath. Investigation by experiment.

https://archive.org/details/investigationbye0000heat

?  uniformity trial of raddish - agridat::heath.raddish.uniformity
50 uniformity trial of cabbage 6x8 plots

Kwanchai A. Gomez & Gomez (1984). Statistical Procedures for Agricultural Research.

Extensive collection of datasets from rice experiments. Many added to agridat.

Cyril H. Goulden, Methods of Statistical Analysis.

First edition: https://archive.org/details/methodsofstatist031744mbp

 18 Uniformity trial - agridat::goulden.barley.uniformity 
153 Split-split plot with factorial sub-plot treatment - agridat::goulden.splitsplit 
194 Incomplete block 
197 Inc block 
205 Latin square 
208 Inc block 
255 Covariates in feeding trial - agridat::crampton.pig

Second edition: http://krishikosh.egranth.ac.in/handle/1/2034118 (broken)

216 Latin square - agridat::goulden.latin 
423 Control chart with egg weights - agridat::goulden.eggs

Harry Love (1936). Applications of Statistical Methods to Agricultural Research.

379 MET 4 year, 2 field, 5 block, 5 gen

Kang, Manjit (2003). Handbook of Formulas and Software for Plant Geneticists and Breeders

Kuehl, Robert. Design of Experiments, 2nd ed.

357 alfalfa quadruple lattice
358 alpha design
488 split-plot sorghum hybrid,density
516 alfalfa rcb, two-year
521 crossover design cattle feedstuff

Erwin LeClerg, Warren Leonard, Andrew Clark (1962). Field Plot Technique

Many small datasets.

 27 uniformity - agridat::goulden.barley.uniformity
213 split-plot
234 immer multi-environment
260 lattice pinto-bean
276 triple lattice cotton
280 lattice sugar beet
289 balanced lattice
336 repeated wheat

Thomas M Little & F. Jackson Hills (1978). Agricultural Experimentation.

 79 Latin square 
 89 Split-plot 
103 Split-split 
117 Split-block - agridat::little.splitblock 
126 Repeated harvests

Harald Martens & Magni Martens. Multivariate Analysis of Quality

https://www.wiley.com/legacy/wileychi/chemometrics/datasets.html

The ‘NIR’ data has NIR spectra measurements of wheat for the purpose of understanding protein quality.

Roger Mead, Robert N. Curnow, Anne M. Hasted (2002). Statistical Methods in Agriculture and Experimental Biology, 3rd ed.

 10 weekly milk yields
 24 carrot weight
 96 cabbage fertilizer
143 intercropping cowpea maize
177 honeybee repellent non-normal
251 cauliflower poisson - agridat::mead.cauliflower
273 rhubarb RCB covariate
296 onion density
316 lambs
341 germination
350 germination factorial - agridat::mead.germination
352 poppy
359 lamb loglinear - agridat::mead.lambs
375 rats
386 intercrop
390 intercrop cowpea maize - agridat::mead.cowpeamaize
404 apple characteristics (incomplete)

Roger Mead (1988). The Design of Experiments

https://books.google.com/books?id=CaFZPbCllrMC&pg=PA323

323 Turnip spacing data - agridat::mead.turnip

Leonard C. Onyiah (2008).

Design and Analysis of Experiments: Classical and Regression Approaches with SAS. https://books.google.com/books?id=_P3LBQAAQBAJ&pg=PA334

334 Two examples of 5x5 Graeco-Latin squares in cassava and maize

Bernard Ostle (1963). Statistics in Research, 2nd ed.

https://archive.org/details/secondeditionsta001000mbp

455 2 factors, 1 covariate
458 1 factor, 2 covariates - agridat::crampton.pig

V. G. Panse and P. V. Sukhatme (1957). Statistical Methods for Agricultural Workers.

https://krishikosh.egranth.ac.in/handle/1/5810134296

  3 Length and number of grains per ear of wheat
138 Uniformity trial - agridat::panse.cotton.uniformity
154 RCB 8 blocks
167 two factorial, 6 rep trial
178 2^4 factorial, 8 blocks, partial confounding
192 3^3 factorial, 3 reps/9 blocks, partial confounding
200 split-plot, 6 rep
212 strip-plot, 6 rep
219 cotton variety trial, yield & stand counts
256 8x8 simpple lattice, 4 reps
282 5 varieties at 6 locations
295 5 N levels at 5 locations
332 4 regions, 9 villages each, 3 treatments

D. D. Paterson (1939). Statistical Technique in Agricultural Research.

https://archive.org/details/statisticaltechn031729mbp

 84 Distribution of purple/white starchy/sweet seeds from 11 ears
190 Sugar cane MET: 2 year, 5 block, 5 variety
199 Tea MET: 3 year, 2^2 factorial fertilizer
206 Grass: 4 rep, 2 gen, 4 cutting treatments
211 Cotton: 4 dates, 3 spacings, 3 irrigation, 2 nitro - agridat::gregory.cotton

Arthur Asquith Rayner (1969). A First Course In Biometry For Agriculture Students.

19 456 2x2x4 Factorial, 2 rep
19 466 2x4 factorial, layout, plot size, kale (from Rothamsted)
19 466 3x5 factorial, 3 rep, potato
20 494 3x4 Split-plot with layout
21 505 2x2x2 Factorial, 5 rep
21 515 2x2x2x2 Factorial, 3 rep, with layout. (Evaluated, rejected as too variable)
22 537 2x2x2 factorial, 6 rep, potato
22 537 2x2x2x2 factorial, 2 rep, wheat, layout

F.S.F. Shaw (1936). A Handbook of Statistics For Use in Plant Breeding and Agricultural Problems

https://archive.org/details/in.ernet.dli.2015.176662

5 - Length of ear head and number of grains per ear, 400 ears.
95 - variety RCB, 5 gen, 25 rep, diagonal layout
107 - Latin square, 8 entries.
117 - Factorial: 8 blocks, 3 varieties, 5 treatments, 2 infections
126 - Multi-environment trial, 3 year, 13 varieties, 2 loc, 5 blocks  agridat::shaw.oats

G. W. Snedecor & W. G. Cochran. Statistical Methods.

168 regression
352 3x3 factorial, 4 blocks
359 2x2x2 factorial, 8 blocks, daily pig gain
362 2x3x4 factorial, 2 blocks, daily pig gain
371 3x4 split-plot, 3 var, 4 date, 6 blocks
374 2x3x3 split-split-plot, irrig, stand, fert, block
378 4x4 split-plot, 4 block, 4 year, 4 cuttings asparagus
384 regression with 2 predictors
428 covariates, 6 varieties, 4 blocks, yield vs stand
440 pig gain vs initial weight, 4 treatments, 40 pigs
454 protein vs yield for wheat, 91 plots, quadratic regression

Robert G. D. Steel & James Hiram Torrie. Principles and Procedures of Statistics, 2nd ed.

154 Mint plant growth, 2-way + pot + plant
244 Trivariate data
319 Regression with three predictors
384 Split-plot yield
387 Split-plot row spacing
400 Soybean 3 loc
423 Pig weight gain
429 Guinea pig weight gain
434 Soybean lodging

Oliver Schabenberger and Francis J. Pierce. Contemporary Statistical Models for the Plant and Soil Sciences.

Many datasets. Some added to agridat.

S. J. Welham et al. (2015). Statistical Methods In Biology.

The online-supplements contain many small datasets for the examples and exercises.

Pesticides in the Nation’s Streams and Ground Water, 1992-2001

Extensive data for detection of pesticides in water samples. See Appendix 5 and Appendix 6 of the supporting info. https://water.usgs.gov/nawqa/pnsp/pubs/circ1291/supporting_info.php

Data Repositories

Ag Data Commons

https://data.nal.usda.gov/about-ag-data-commons https://data.nal.usda.gov/search/type/dataset

CyVerse Data Commons

https://datacommons.cyverse.org/ https://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated

DataDryad

Harvard Dataverse

https://dataverse.harvard.edu/

IRRI Rice Research includes plot-level data for long term rice experiments. https://dataverse.harvard.edu/dataverse/RiceResearch

Nature Scientific Data

https://www.nature.com/sdata/

Open Data Journal for Agricultural Research

https://library.wur.nl/ojs/index.php/odjar/

Plant Genomics and Phenomics Research Data Repository

Wolfram Data Repository

https://datarepository.wolframcloud.com/

Journals - Bulletins

Iowa State Agricultural Research Bulletins

https://lib.dr.iastate.edu/ag_researchbulletins/

Vol 26/ 281. Cox: Analysis of Lattice and Triple Lattice.
Page 11: Lattice, 81 hybs, 4 reps 
Page 24: Triple lattice, 81 hybs, 6 reps

Vol 29/347. Homeyer. Punched Card and Calculating Machine Methods for Analyzing 
  Lattice Experiments Including Lattice Squares and the Cubic Lattice.
Page 37: Triple lattice (9 blocks * 9 hybrids) with 6 reps.
Page 60: Simple lattice, 8 blocks * 8 hybrids, 4 reps.
Page 76: Balanced lattice, 25 hybrids 
Page 87: Lattice square with (k+1)/2 reps, 121 hybrids, 6 rep 
Page 109: Lattice square with k+1 reps, 7 blocks * 7 hyb, 8 reps 
Page 126: Cubic lattice, 16 blocks * 4 plots = 64 varieties, 9 reps, cotton

Vol 32/396. Wassom. Bromegrass Uniformity Trial: agridat::wassom.bromegrass.uniformity

Vol 33/424. Heady. Crop Response Surfaces and Economic Optima in 
  Fertilizer - agridat::heady.fertilizer

Vol 34/358. Schwab. Research on Irrigation of Corn and Soybeans At Conesville.
Page 257. 2 year, 2 loc, 4 rep, 2 nitro. Stand & yield.
  Nice graph of soil moisture deficit (fig 9)

Vol. 34/463. Doll. Fertilizer Production Functions for Corn and Oats.
Table 1, 1954 Clarion Loam.  N,P,K.
Table 14, 1955 McPaul Silt Loam.  N,P.
Table 25, 1955 corn.  K,P,N.
Table 31, 1956 oats, K,P,N.  Trends difficult to establish.

Vol 34/472. Pesek. Production Surfaces and Economic Optima For Corn Yields.
  Same data published in SSA journal?

Vol 34/488. Walker. Application of Game Theory Models to Decisions.

Vol 35/494. North Central Regional Potassium Studies with Alfalfa.
Page 176. Two years, several locs per state, multiple states, multiple fertilizer 
  levels, multiple cuttings. Soil test attributes.
Page 183. Yield and %K.

Vol 35/503. North Central Regional Potassium Studies with Corn.

Papers

Xavier, Alencar et al.. Genome-Wide Analysis of Grain Yield Stability and Environmental Interactions in a Multiparental Soybean Population, https://www.g3journal.org/content/8/2/519

Data are in the SoyNAM and NAM packages.

Barrero, Ivan D. et al. (2013). A multi-environment trial analysis shows slight grain yield improvement in Texas commercial maize. Field Crops Research, 149, Pages 167-176. https://doi.org/10.1016/j.fcr.2013.04.017

This is a large (14500 records), multi-year, multi-location, 10-trait data. Sent a note encouraging the authors to formally publish the data. Source: http://maizeandgenetics.tamu.edu/CTP/CTP.html

Cleveland, M.A. and John M. Hickey, Selma Forni (2012). A Common Dataset for Genomic Analysis of Livestock Populations. G3, 2, 429-435. https://doi.org/10.1534/g3.111.001453

The supplemental information for this paper contains data for 3534 pigs with high-density genotypes (50000 SNPs), and a pedigree including parents and grandparents of the animals.

Daillant-Spinnler (1996). Relationships between perceived sensory properties and major preference directions of 12 variaties of apples from the southern hemisphere. Food Quality and Preference, 7(2), 113-126. https://dx.doi.org/10.1016/0950-3293(95)00043-7

The data are in ClustVarLV::apples_sh$pref and ClustVarLV::apples_sh$senso 12 apple varieties, 43 traits, 60 consumers

Gregory, Crowther & Lambert (1932). The interrelation of factors controlling the production of cotton under irrigation in the Sudan. Jour Agric Sci, 22, p. 617.

Hedrick (1920). Twenty years of fertilizers in an apple orchard. https://books.google.com/books?hl=en&lr=&id=SqlJAAAAMAAJ&oi=fnd&pg=PA446

The authors found no significant differences between fertilizer treatments.

Meehan & Gratton (2016). A Landscape View of Agricultural Insecticide Use across the Conterminous US from 1997 through 2012. PLOS ONE, https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0166724

Supplemental material contains county-level data for each of 4 years. Complete R-INLA code for analysis.

Monteverde et al Integrating Molecular Markers and Environmental Covariates To Interpret Genotype by Environment Interaction in Rice (Oryza sativa L.) Grown in Subtropical Areas https://doi.org/10.1534/g3.119.400064 https://gsajournals.figshare.com/articles/dataset/Supplemental_Material_for_Monteverde_et_al_2019/7685636

Supplemental information contains phenotypic data and markers and environmental covariates for PLS analysis.

Roger W. Hexem, Earl O.Heady, Metin Caglar (1974) A compendium of experimental data for corn, wheat, cotton and sugar beets grown at selected sites in the western United States and alternative production functions fitted to these data. Technical report: Center for Agricultural and Rural Development, Iowa State University. https://babel.hathitrust.org/cgi/pt?id=wu.89031116783;view=1up;seq=3

The technical report provides data from experiments on corn, wheat, cotton & sugar beets, each crop tested at several locations over two years, with a factorial structure on irrigation and nitrogen treatments, with replications. Three polynomial functions were fit to the data for each location (quadratic, square root, three-halves).

Kenward, Michael G. (1987). A Method for Comparing Profiles of Repeated Measurements. Applied Statistics, 36, 296-308.

An ante-dependence model is fit to repeated measures of cattle weight.

Klumper & Qaim (2015). A Meta-Analysis of the Impacts of Genetically Modified Crops. https://doi.org/10.1371/journal.pone.0111629

Nice meta-analysis dataset. Published data only include differences, not standard-errors. See the comments on PLOS article for some peculiarities in the data.

Lado, B. et al. (2013). Increased Genomic Prediction Accuracy in Wheat Breeding Through Spatial Adjustment of Field Trial Data. G3, 3, 2105-2114. https://doi.org/10.1534/g3.113.007807

Has a large haplotype dataset (83 MB) and two-year phenotype data with multiple traits.

Payne, Roger (2015). The Design and Analysis of Long-Term Rotation Experiments. Agronomy Journal, 107, 772-784. https://doi.org/10.2134/agronj2012.0411

The data and R code appeared in the paper. Free access, but closed copyright.

Snedecor, George and E. S. Haber (1946). Statistical Methods For an Incomplete Experiment on a Perennial Crop. Biometrics Bulletin, 2, 61-67. https://doi.org/10.2307/3001959

Harvest of asparagus over 10 years, three cutting dates per year, 6 blocks.

Technow, Frank, et al. (2014). Genome Properties and Prospects of Genomic Prediction of Hybrid Performance in a Breeding Program of Maize. August 1, 2014 vol. 197 no. 4 1343-1355. https://doi.org/10.1534/genetics.114.165860

Genotype and phenotype data appears in the sommer package.

Tian, Ting (2015). Application of Multiple Imputation for Missing Values in Three-Way Three-Mode Multi-Environment Trial Data. https://doi.org/10.1371/journal.pone.0144370

Uses agridat::australia.soybean data and one other real dataset with 4 traits that are not identified. All data and code available.

Randall J. Wisser et al. (2011). Multivariate analysis of maize disease resistances suggests a pleiotropic genetic basis and implicates a GST gene. PNAS. https://doi.org/10.1073/pnas.1011739108

The supplement contains genotype data, but no phenotype data.

Rife et al. (2018) Genomic analysis and prediction within a US public collaborative winter wheat regional testing nursery. https://doi.org/10.5061/dryad.q968v83

Large phenotypic dataset with 691 wheat lines, 33 years, 670 environments, 3-4 reps, 120000 datapoints. No genotypic data is included.

van der Voet et al. (2017). Equivalence testing using existing reference data: An example with genetically modified and conventional crops in animal feeding studies. https://doi.org/10.1016/j.fct.2017.09.044

The full datasets for the GRACE studies A-E are available here: https://www.cadima.info/index.php/area/publicAnimalFeedingTrials CC license.

Yan, Weikei (2002). Singular value partitioning in biplots. Agron Journal.

Winter wheat, 31 gen in 8 loc. This data is different from Yan’s earlier papers. Unfortunately, the data given in the paper are missing two rows.

R packages on CRAN, Github, etc.

agriCensData

https://github.com/OnofriAndreaPG/agriCensData

Three datasets with censored observations for the paper “Analyzing interval-censored data in agricultural research: A review with examples and software tips”.

agriTutorial

https://myaseen208.github.io/agriTutorial/

Five datasets used to illustrate analyses.

agricolae

Has assorted data and functions for analysis of agricultural data.

agroBioData

https://github.com/OnofriAndreaPG/agroBioData

Datasets for agriculture and applied biology. Referenced by this blog: https://www.statforbiology.com/

aml - Adaptive Mixed LASSO

Data aml::wheat genetic and phenotypic data for wheat. Modest size.

BGLR - Bayesian Generalized Linear Regression.

Has an A matrix (but no pedigree) for 499 genotypes at 4 locations.

BLR - Bayesian Linear Regression.

Has an A matrix (but no pedigree) for 499 genotypes at 4 locations.

BSagri

Safety assessment in agriculture trials

ClustVarLV

Data apples_sh sensory attributes and preference scores for 12 apple varieties.

cropcc - Climate change on crops

https://r-forge.r-project.org/projects/cropcc/

drc - Dose response curves

Has nice herbicide dose response curves and germination data for mungbean, rice, wheat.

epiphy

https://github.com/chgigot/epiphy

Contains 10 historical datasets for plant disease epidemics.

FW - Finlay-Wilkinson regression

https://github.com/lian0090/FW/

Has phenotype data and marker data for 599 wheat lines in 4 environments.

ggenealogy

https://www.jstatsoft.org/article/view/v089i13

Data sbGeneal contains a soybean pedigree with 230 varieties.

gRbase

Data gRbase::carcass: thickness of meat and fat on slaughter pigs

lmDiallel

https://github.com/OnofriAndreaPG/lmDiallel/tree/master/data

lmtest

Data lmtest::ChickEgg time series of annual chicken and egg production in the United States 1930-1983.

NADA

Data Atra and Recon contain measurements of Atrazine in water samples.

nlraa

Miguez. Non-linear models in agriculture. nlraa::sm = agridat::miguez.biomass Vignettes and functions for working with (non)linear mixed models

nlme

nlme::Orange: Growth of orange trees

nlme::Soybean: Growth of soybean plants. From the book “Nonlinear Models for Repeated Measurement Data”.

pbkrtest

pbkrtest::beets Yield and percent sugar in split-plot experiment.

plantbreeding

https://r-forge.r-project.org/projects/plantbreeding/

Data: fulldial
Data: linetester
Data: peanut same as agridat::kang.peanut

SDaA - Survey Data and Analysis

This package has county-level data from the United States Census of Agriculture, along with a vignette to illustrate survey sampling analyses.

SemiPar

Data: SemiPar::onions is same as agridat::ratkowski.onions

soilDB

https://ncss-tech.github.io/AQP/soilDB/soilDB-Intro.html Soil database interface.

sommer - Solving mixed model equations in R

Data: h2. Modest-sized GxE experiment in potato Data: cornHybrid. Yield/PLTHT for 100 hybrids from 20 inbred * 20 inbred, 4 locs. Phenotype and relationship matrix.

Data:

data(DT_wheat) #  CIMMYT wheat data
DT_wheat # 599 varieties, yield in 4 envts
GT_wheat # 599 varieties, 1279 markers coded -1,1

Data: RICE

Data: FDdata taken from agridat::bond.diallel

Data:

data(DT_technow) # From http://www.genetics.org/content/197/4/1343.supplemental
DT <- DT_technow  # 1254 hybs, parents, GY=yield, GM=moisture
Md <- Md_technow  # 123 dent parents, 35478 markers
Mf <- Mf_technow  # 86 flint parents, 37478 markers
Ad <- Ad_technow  # 123 x 123 A matrix 
Af <- Af_technow  # 86 x 85 A matrix

SoyNAM - Soybean nested association mapping

Dataset with phenotype data 3 yr, 9 locations, 18 environments, 60 thousand observations for height, maturity, lodging, moisture, protein, oil, fiber, seed size. There are 5000+ strains, 40 families.

Data formatted for the analysis of the NAM package is available with the following command: SoyNAM::ENV().

spdep

Has a vignette ‘The Problem of Spatial Autocorrelation: forty years on’ that examines agriculture in Irish counties. See also the data ade4::irishdata.

spuRs

Data: spuRs::trees has data for 107 trees that were cut into cross sections with the volume calculated at roughly 10-year increments. This is a subset of the much-larger original data from Guttenberg: https://archive.org/stream/wachstumundertra00gutt

StatForBiology

https://www.statforbiology.com/

Blog posts with example analyses.

statgenSTA

https://CRAN.R-project.org/package=statgenSTA See vignette: Modeling field trials using statgenSTA

statgenGWAS

https://CRAN.R-project.org/package=statgenGWAS

Includes a worked example with data from: https://data.inra.fr/dataset.xhtml?persistentId=doi:10.15454/IASSTN

st4gi - Stat for genetic improvement

https://github.com/reyzaguirre/st4gi

Web sites

ARS oat trials

https://www.ars.usda.gov/Main/docs.htm?docid=8419&page=4

CIMMYT Research Data

https://data.cimmyt.org/dataverse/cimmytdatadvn

Genomes To Fields (G2F)

https://www.genomes2fields.org/publications/

https://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated/Carolyn_Lawrence_Dill_G2F_Nov_2016_V.3

Very large GxE data here for 2014 and 2015. Hybrid & inbred phenotype data, weather data, genomic data. Very nice.

GLTEN Global Long Term Metadal Portal

https://glten.org/

Links to long-term experiments.

Grain genes

  1. https://wheat.pw.usda.gov/ggpages/HxT/ The Harrington x TR306 Barley Mapping Population. The genotype and phenotype data comes from Mapmaker, but seems to be in a slightly non-standard format; 145 DH lines, 217 markers, 25 env, 1 rep.

  2. https://wheat.pw.usda.gov/ggpages/SxM/ . This data is agridat::steptoe.morex.

Ideals

https://www.ideals.illinois.edu/handle/2142/3528 Data File : Raw data from each ear analyzed each year of the Illinois long-term selection experiment for oil and protein in corn (1896-2004)

ILRI International Livestock Research Institute

Case study 4 is a nice diallel example with sheep data. Available as agridat::ilri.sheep

IRRI Biometrics and Breeding Informatics

http://bbi.irri.org/products

STAR, PBTools, CropStat. The STAR user guide has well-documented data (even using 2 from agridat), but the PBTools user guide does not document the data.

Rothamsted Electronic Archive

http://www.era.rothamsted.ac.uk/index.php Data from Broadbalk and other long-term experiments.

Github draft data: https://github.com/Rothamsted-Ecoinformatics/YieldbookDatasetDrafts

Rothamsted Documents Archive

http://www.era.rothamsted.ac.uk/eradoc/collections.php

Annual reports from Rothamsted 1908-1987. Many have data, especially in the early years (before WWII) there are data given for the ‘Classical Experiments’.

Year, page
1908-1926 
1926-1927 agridat::sawyer.multi.uniformity 
1927-1928 agridat::sawyer.multi.uniformity
1929-1930
1931,143 agridat::yates.oats
1932
1933
1934,215-222 Sugar beet multi-environment trial with 3^3 fertilizer 
  treatments at each site Roots, SugarPercent, SugarWeight, PlantNumber, Tops, Purity.
1935
1936,241 Similar to the 1934 experiment, but only gives the main effects, 
  not the actual data.
1937-1939
1946-1953

SolCAP Solanaceae Coordinated Agricultural Project

http://www.solcap.msu.edu/

Potato and Tomato genotype and phenotype data.

Statistical Analysis of Agricultural Experiments with R

rstats4ag.org (no http included here because of firewall problems).

Datasets for mixed models, ancova, dose response curves, competition.

Syngenta Crop Challenge

https://www.ideaconnection.com/syngenta-crop-challenge/

Annual Kaggle-style competition sponsored by Syngenta.

Terra-Ref

https://terraref.org/

Sensor observations, plant phenotypes, derived traits, genetic and genomic data. Beta version until Nov 2018.

USDA National Agricultural Statistics Service

https://www.nass.usda.gov https://quickstats.nass.usda.gov/

Group: Field Crops Commodity: Corn Category: Area Harvested, Yield Data Item: Corn grain Acres Harvested, Yield Bu/Ac Domain: Total Geography: State See agridat::nass.corn, nass.wheat, etc.

Other

Rothamsted Library

https://www.rothamsted.ac.uk/library-and-information-services

Archive catalog.

Box of uniformity trial data

STATS17  WG Cochran
 
Uniformity trial data. 
Genstat data. Data received since publication of the catalogue.  1935-1943. 
Uniformity trial data.  1930-1936. 
Uniformity trials.  1936-1938. 
Uniformity trials.  R data.  1936-1937. 
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Data.  Yields of grain per foot length.  1934. 
Catalogue of field uniformity trial data.  N. d. 
Demandt.  1931. One box