This package is considered a duplicate. The official version of this package is found at:https://biocro.r-universe.dev/BioCro

Package: BioCro 0.95

Deepak Jaiswal

BioCro: BioCro Crop and Agroecosystem Simulator

Simulate C4 crops and coppice trees.

Authors:Fernando Miguez <[email protected]>, Deepak Jaiswal <[email protected]>, Dan Wang <[email protected]>, David LeBauer <[email protected]>

BioCro_0.95.tar.gz
BioCro_0.95.zip(r-4.7)BioCro_0.95.zip(r-4.6)BioCro_0.95.zip(r-4.5)
BioCro_0.95.tgz(r-4.6-x86_64)BioCro_0.95.tgz(r-4.6-arm64)BioCro_0.95.tgz(r-4.5-x86_64)BioCro_0.95.tgz(r-4.5-arm64)
BioCro_0.95.tar.gz(r-4.7-arm64)BioCro_0.95.tar.gz(r-4.7-x86_64)BioCro_0.95.tar.gz(r-4.6-arm64)BioCro_0.95.tar.gz(r-4.6-x86_64)
BioCro_0.95.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
BioCro/json (API)

# Install 'BioCro' in R:

install.packages('BioCro', repos = c('https://pecanproject.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ebimodeling/biocro/issues

Datasets:

aci - A/Ci curves
annualDB - Miscanthus dry biomass data.
annualDB2 - Miscanthus dry biomass data.
aq - A/Q curves
cmi0506 - Weather data
cmiWet - Weather data
doy124 - Weather data
EngWea94i - Weather data corresponding to a paper by Clive Beale (see source).
EngWea94rf - Weather data corresponding to a paper by Clive Beale (see source).
LayET - Weather data
obsBea - Miscanthus assimilation field data
obsBeaC - Complete Miscanthus assimilation field data
obsNaid - Miscanthus assimilation data
simDat2 - Simulated biomass data.
WD1979 - Randomly picked dataset from the Illinois area from 1979
weather04 - Weather data
weather05 - Weather data
weather06 - Weather data

On CRAN:

5.68 score 48 stars 125 scripts 378 downloads 89 exports 1 dependencies

Last updated from:fb1f88ce5b (on 0.951). Checks:12 ERROR, 1 OK. Indexed: no.

Target	Result	Time
linux-devel-arm64	ERROR	166
linux-devel-x86_64	ERROR	174
source / vignettes	ERROR	207
linux-release-arm64	ERROR	160
linux-release-x86_64	ERROR	159
macos-release-arm64	ERROR	129
macos-release-x86_64	ERROR	340
macos-oldrel-arm64	ERROR	133
macos-oldrel-x86_64	ERROR	404
windows-devel	ERROR	206
windows-release	ERROR	193
windows-oldrel	ERROR	207
wasm-release	OK	111

Exports:ardBuck assignParms assignPoolsParms BioGro c3CanA c3photo c3photoParms c4photo CanA caneGro canenitroParms canephenoParms caneseneParms canesoilParms canopyParms Century CenturyC centuryParms CheckLeapYear constrOpBioGro CropGro eC4photo eCanA fnpsvp frostParms GetBioCroToCropcentParms GetC13Parms GetCropCentStateVarParms GetErosionParms GetLeachingParms GetSymbNFixationParms idbp iwillowParms laiParms lightME lnParms MaizeCAllocParms MaizeGro MaizeNitroParms MaizePhenoParms MaizePhotoParms MaizeSeneParms managementParms MCMCBioGro MCMCc4photo MCMCEc4photo mOpc3photo mOpc4photo nitroParms OpBioGro Opc3photo Opc4photo OpEC4photo phenoParms photoParms plotAC plotAQ replaceMineralStructParms Rmiscanmod rootDist RsqC4photo RsqEC4photo RssBioGro RUEmod RUEmodMY seneParms showSoilType SoilEvapo soilML soilParms SoilType soyGro sunML valid_dbp weach weach_imn weach365 weach366 weachNEW willowcanopyParms willowCent willowGro willownitroParms willowphenoParms willowphotoParms willowseneParms willowsoilParms wsRcoef wtrstr

Dependencies:lattice

Vignettes and/or manual for this package failed to build, some documents may be unavailable. Please inspect thebuild logs for more information.

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
A/Ci curves	aci
Miscanthus dry biomass data.	annualDB annualDB2
A/Q curves	aq
BioCro	BioCro
Biomass crops growth simulation	BioGro canopyParms centuryParms nitroParms phenoParms photoParms print.BioGro seneParms showSoilType soilParms SoilType
Simulates canopy assimilation for C3 canopies	c3CanA
Simulates C3 photosynthesis	c3photo
Coupled photosynthesis-stomatal conductance simulation	c4photo
Simulates canopy assimilation	CanA lnParms
This function implements the Century model from Parton.	Century CenturyC
This fuction checks if year is a leap year. If yes, then returns 1 or 0.	CheckLeapYear
Weather data	cmi0506
Weather data	cmiWet
Biomass crops growth simulation	BioGro canopyParms centuryParms CropGro nitroParms phenoParms photoParms print.BioGro seneParms showSoilType soilParms SoilType
Weather data	doy124
C4 photosynthesis simulation (von Caemmerer model)	eC4photo
Simulates canopy assimilation (von Caemmerer model)	eCanA
Weather data corresponding to a paper by Clive Beale (see source).	EngWea94i
Weather data corresponding to a paper by Clive Beale (see source).	EngWea94rf
Initial Dry Biomass Partitioning Coefficients	idbp
idpm	idbpm
Weather data	LayET
Simulates the light macro environment	lightME
Simulation of Maize, Growth, LAI, Photosynthesis and phenology	MaizeGro
Lists values for phenology parameters	MaizePhenoParms
Lists values for senecence parameters	MaizeSeneParms
Simulated annealing and MCMC function	MCMCBioGro print.MCMCBioGro
Markov chain Monte Carlo for C4 photosynthesis parameters	MCMCc4photo print.MCMCc4photo
Markov chain Monte Carlo for C4 photosynthesis parameters	MCMCEc4photo
Multiple optimization of assimilation (or stomatal conductance) curves.	mOpc3photo
Multiple optimization of C4 photosynthesis.	mOpc4photo plot.mOpc4photo print.mOpc4photo
Miscanthus assimilation field data	obsBea
Complete Miscanthus assimilation field data	obsBeaC
Miscanthus assimilation data	obsNaid
Optimization of dry biomass partitioning coefficients.	constrOpBioGro OpBioGro summary.OpBioGro
Optimize parameters of the C3 photosynthesis model.	Opc3photo plot.Opc3photo predict.Opc3photo print.Opc3photo
Optimization of C4 photosynthesis parameters	Opc4photo plot.Opc4photo plotAQ predict.Opc4photo print.Opc4photo print.summary.Opc4photo summary.Opc4photo
Plotting function for BioGro objects	plot.BioGro
Plotting function for MCMCc4photo objects	plot.MCMCc4photo
Plottin function for MCMCEc4photo objects	plot.MCMCEc4photo
Plotting method	plot.mOpc3photo
Plotting method	plot.mOpc4photo
Plotting function for willowGro objects	plot.willowGro
plot A/Ci curve	plotAC
plot A/Q curve	plotAQ
Predict method	predict.Opc3photo
Predict method	predict.Opc4photo
Print an MCMCEc4photo object	print.MCMCEc4photo
Printing method	print.mOpc4photo
Display methods for Opc4photo and OpEC4photo	print.Opc3photo
Display methods for Opc4photo and OpEC4photo	print.Opc4photo
RUE-based model to calculate miscanthus growth and yield.	Rmiscanmod
R-squared for C4 photosynthesis simulation (Collatz model)	RsqC4photo
Residual sum of squares for BioGro.	RssBioGro
Radiation use efficiency based model	RUEmodMY
Simulated biomass data.	simDat2
Soil Evaporation	SoilEvapo
soil multi-layered	rootDist soilML
This function will implement simple calculations of predicted and residuals for the Opc4photo function	summary.Opc4photo
Sunlit shaded multi-layer model	sunML
Returns a value for SlopeFS from a function of temperature	TempToSFS
Validate dry biomass partitioning coefficients	valid_dbp
Randomly picked dataset from the Illinois area from 1979	WD1979
Downscales daily weather to hourly	weach
weachDT	weach.data.table
Weather data	weather04 weather05
Weather data	weather06
willowmass crops growth simulation	canopyParms centuryParms nitroParms phenoParms photoParms print.willowGro seneParms showSoilType soilParms SoilType willowGro
Simple function to illustrate soil water content effect on plant water stress.	ws wsRcoef wtrstr