Package index
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BADM - Biomass and soil data from FluxNet sites
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BADM_IC_process() - BADM_IC_process
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Clean_Tucson() - Clean_Tucson
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EPA_ecoregion_finder() - EPA_ecoregion_finder
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IC_ISCN_SOC() - Extract ISCN SOC initial conditions from existing ISCN database.
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InventoryGrowthFusion() - InventoryGrowthFusion
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InventoryGrowthFusionDiagnostics() - InventoryGrowthFusionDiagnostics
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Read.IC.info.BADM() - Read.IC.info.BADM
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Read_Tucson() - Read_Tucson
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Soilgrids_SoilC_prep() - Prepare Soilgrids SoilC data for the SDA workflow.
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buildJAGSdata_InventoryRings() - Format ring & plot data for JAGA
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clip_and_save_raster_file() - Clip and Save a Raster File
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cohort2pool() - cohort2pool
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dataone_download() - DataONE download
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download.SM_CDS() - Download CDS soil moisture data for the SDA workflow.
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download_NEON_soilmoist() - Download NEON Soil Water Content and Soil Salinity data by date and site name
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download_package_rm() - download_packages
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ens_veg_module() - Sampling/ensemble module
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estimate_dirichlet_parameters() - A function to estimate individual alphas for Dirichlet distribution to approximate the observed quantiles with means as known moments for SoilGrids soil texture data. Dirichlet distribution is assumed as soil texture data follow categorical distribution and the probability of each category is in the range 0 to 1, and all must sum to 1.
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extract.stringCode() - extract.stringCode
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extract_FIA() - extract_FIA
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extract_NEON_veg() - extract_NEON_veg
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extract_SM_CDS() - Extract CDS soil moisture data for the SDA workflow.
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extract_soil_gssurgo() - Extract soil data from gssurgo
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extract_soil_nc() - Extract soil data from the gridpoint closest to a location
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extract_veg() - extract_veg
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fertilizer_composition_data - Fertilizer Nutrient Composition Table
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fia.to.psscss() - Create pss/css files based on data in the fia database
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format_identifier() - format_identifier
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from.Tag() - from.Tag
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from.TreeCode() - from.TreeCode
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gSSURGO.Query() - This function queries the gSSURGO database for a series of map unit keys
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generate_soilgrids_ensemble() - Generate soil carbon ensemble members for specific depth
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get.attributes() - Retrieve attribute information from a vector or raster layer
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get.soil() - get.soil
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get_resource_map() - get_resource_map
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get_veg_module() - Load/extract + match species module
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ic_process() - ic_process
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id_resolveable() - id_resolveable
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iscn_soc - Soil organic carbon (SOC) density based on eco-region level 2 code from the ISCN database.
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load_veg() - load_veg
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look_up_fertilizer_components() - Calculate the Nitrogen and Carbon Content of a Fertilizer Application
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matchInventoryRings() - matchInventoryRings
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match_pft() - match_pft
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match_species_id() - Match BETY species ID.
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mpot2smoist() - Convert a matric potential to a soil moisture
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netcdf.writer.BADM() - netcdf.writer.BADAM
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om2soc() - Convert organic matter to soil organic carbon
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parse.MatrixNames() - parse.MatrixNames
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partition_roots() - partition_roots
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plot2AGB() - plot2AGB
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pool_ic_list2netcdf() - pool_ic_list2netcdf
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pool_ic_netcdf2list() - pool_ic_netcdf2list
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prepare_pools() - prepare_pools
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preprocess_soilgrids_data() - Preprocess SoilGrids data for ensemble generation
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put_veg_module() - Match species to PFTs + veg2model module
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sample_ic() - sample_ic
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sclass() - This function determines the soil class number based on the fraction of sand, clay, and silt
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shp2kml() - Convert shapefile to KML
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soc2ocs() - Convert soil organic carbon concentration to organic carbon stock
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soil.units() - Get standard units for a soil variable
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soil2netcdf() - Save soil texture & parameters in PEcAn standard netCDF CF
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soil_class - Default parameters for calculating soil properties from sand & clay content
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soil_params() - Estimate soil parameters from texture class or sand/silt/clay
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soil_params_ensemble_soilgrids() - A function to estimate the soil parameters based on SoilGrids soil texture data and write the parameter paths into settings
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soil_process() - Module for managing soil texture extraction
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soilgrids_ic_process() - SoilGrids Initial Conditions (IC) Utilities
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soilgrids_soilC_extract() - soilgrids_soilC_extract
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soilgrids_texture_extraction() - soilgrids_texture_extraction
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subset_layer() - Function to subset and clip a GIS vector or raster layer by a bounding box or clip/subset layer (e.g. shapefile/KML)
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to.Tag() - to.Tag
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to.TreeCode() - to.TreeCode
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validate_events_json() - Validate PEcAn events JSON against schema v0.1.0
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write_ic() - write_ic
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write_veg() - write_veg