{ "_id": "6a29038f732311cd87591a84", "Package": "manureshed", "Type": "Package", "Title": "Spatiotemporal Nutrient Balance Analysis Across Agricultural and\nMunicipal Systems", "Version": "0.1.5", "Authors@R": "c(\nperson(\"Olatunde D.\", \"Akanbi\", , \"olatunde.akanbi@case.edu\", role = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0001-7719-2619\")),\nperson(\"Vibha\", \"Mandayam\", role = \"aut\",\ncomment = c(ORCID = \"0009-0008-8628-9904\")),\nperson(\"Atharva\", \"Gupta\", role = \"aut\",\ncomment = c(ORCID = \"0009-0004-5372-0260\")),\nperson(\"K. Colton\", \"Flynn\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-5718-1071\")),\nperson(\"Jeffrey\", \"Yarus\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-9331-9568\")),\nperson(\"Erika I.\", \"Barcelos\", , \"erika.barcelos@case.edu\", role = c(\"aut\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-9273-8488\")),\nperson(\"Roger H.\", \"French\", , \"roger.french@case.edu\", role = c(\"aut\", \"cph\"),\ncomment = c(ORCID = \"0000-0002-6162-0532\"))\n)", "Maintainer": "Olatunde D. Akanbi ", "Description": "A comprehensive framework for analyzing agricultural\nnutrient balances across multiple spatial scales (county,\n'HUC8', 'HUC2') with integration of wastewater treatment plant\n('WWTP') effluent loads for both nitrogen and phosphorus.\nSupports classification of spatial units as nutrient sources,\nsinks, or balanced areas based on agricultural surplus and\ndeficit calculations. Includes visualization tools, spatial\ntransition probability analysis, and nutrient flow network\nmapping. Built-in datasets include agricultural nutrient\nbalance data from the Nutrient Use Geographic Information\nSystem ('NuGIS'; The Fertilizer Institute and Plant Nutrition\nCanada, 1987-2016) and\nU.S. Environmental Protection Agency ('EPA') wastewater\ndischarge data from the 'ECHO' Discharge Monitoring Report\n('DMR') Loading Tool (2007-2016)\n.\nData are downloaded on demand from the Open Science Framework\n('OSF') repository to minimize package size while maintaining\nfull functionality. The integrated 'manureshed' framework\nmethodology is described in Akanbi et al. (2025)\n. Designed for nutrient\nmanagement planning, environmental analysis, and circular\neconomy research at watershed/administrative to national\nscales. This material is based upon financial support by the\nNational Science Foundation, EEC Division of Engineering\nEducation and Centers, NSF Engineering Research Center for\nAdvancing Sustainable and Distributed Fertilizer Production\n(CASFER), NSF 20-553 Gen-4 Engineering Research Centers award\n2133576. We thank Dr. Robert D. Sabo (U.S. Environmental\nProtection Agency) for his valuable contributions to the\nconceptual development and review of this work. We acknowledge\nDr. Sheri Spiegal (U.S. Department of Agriculture–Agricultural\nResearch Service) for foundational contributions to the\nmanureshed classification framework (Spiegal et al. 2020)\n.", "License": "MIT + file LICENSE", "URL": "https://osf.io/g39xa/, https://github.com/cwru-sdle/manureshed,\nhttps://exelegch.github.io/manureshed-docs/", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "SystemRequirements": "GDAL (>= 2.0.1), GEOS (>= 3.4.0), PROJ (>= 4.8.0)", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Config/pak/sysreqs": "libabsl-dev cmake libgdal-dev gdal-bin libgeos-dev\nlibglpk-dev libicu-dev libxml2-dev libssl-dev libproj-dev\nlibsqlite3-dev libudunits2-dev", "Repository": "https://cwru-sdle.r-universe.dev", "Date/Publication": "2026-05-11 16:12:06 UTC", "RemoteUrl": "https://github.com/cwru-sdle/manureshed", "RemoteRef": "HEAD", "RemoteSha": "8ba8ec237dd7eb064ab26423351c469832343744", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-10 06:22:14 UTC", "User": "root" }, "Author": "Olatunde D. Akanbi [aut, cre, cph] (ORCID:\n),\nVibha Mandayam [aut] (ORCID: ),\nAtharva Gupta [aut] (ORCID: ),\nK. Colton Flynn [aut] (ORCID: ),\nJeffrey Yarus [aut] (ORCID: ),\nErika I. Barcelos [aut, cph] (ORCID:\n),\nRoger H. French [aut, cph] (ORCID:\n)", "MD5sum": "58c1fae5a7494f979c10ad3b920af25a", "_user": "cwru-sdle", "_type": "src", "_file": "manureshed_0.1.5.tar.gz", "_fileid": "e6d99bc5b9b361b6bc312217c7b9134ffb39a9b5c25f4932b16e4f34e5d66835", "_filesize": 4769875, "_sha256": "e6d99bc5b9b361b6bc312217c7b9134ffb39a9b5c25f4932b16e4f34e5d66835", "_created": "2026-06-10T06:22:14.000Z", "_published": "2026-06-10T06:26:23.197Z", "_distro": "noble", "_jobs": [ { "job": 80494937366, "time": 208, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "7528087633" }, { "job": 80494937359, "time": 197, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "7528084444" }, { "job": 80494937411, "time": 144, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "7528071023" }, { "job": 80494937419, "time": 124, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "7528065795" }, { "job": 80494388850, "time": 245, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7528034073" }, { "job": 80494937353, "time": 164, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7528076351" }, { "job": 80494937401, "time": 125, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "7528066400" }, { "job": 80494937408, "time": 118, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "7528064594" }, { "job": 80494937391, "time": 117, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "7528064303" } ], "_buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cwru-sdle/manureshed", "_commit": { "id": "8ba8ec237dd7eb064ab26423351c469832343744", "author": "oda10 ", "committer": "oda10 ", "message": "added optional hub-site selection\n", "time": 1778515926 }, "_maintainer": { "name": "Olatunde D. Akanbi", "email": "olatunde.akanbi@case.edu", "orcid": "0000-0001-7719-2619" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "dplyr", "version": ">= 1.0.0", "role": "Imports" }, { "package": "sf", "version": ">= 1.0.0", "role": "Imports" }, { "package": "ggplot2", "version": ">= 3.3.0", "role": "Imports" }, { "package": "tidyr", "version": ">= 1.1.0", "role": "Imports" }, { "package": "jsonlite", "version": ">= 1.7.0", "role": "Imports" }, { "package": "rlang", "version": ">= 0.4.0", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "scales", "version": ">= 1.1.0", "role": "Imports" }, { "package": "igraph", "version": ">= 1.2.0", "role": "Imports" }, { "package": "tigris", "version": ">= 1.5.0", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "tools", "role": "Imports" }, { "package": "nhdplusTools", "version": ">= 0.5.0", "role": "Suggests" }, { "package": "RColorBrewer", "version": ">= 1.1.0", "role": "Suggests" }, { "package": "cowplot", "version": ">= 1.1.0", "role": "Suggests" }, { "package": "ggpubr", "version": ">= 0.4.0", "role": "Suggests" }, { "package": "viridis", "version": ">= 0.6.0", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "ragg", "role": "Suggests" }, { "package": "progress", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "shiny", "version": ">= 1.7.0", "role": "Suggests" }, { "package": "shinydashboard", "version": ">= 0.7.0", "role": "Suggests" }, { "package": "leaflet", "version": ">= 2.0.0", "role": "Suggests" }, { "package": "plotly", "version": ">= 4.9.0", "role": "Suggests" }, { "package": "DT", "version": ">= 0.18", "role": "Suggests" }, { "package": "exactextractr", "role": "Suggests" }, { "package": "ggrepel", "role": "Suggests" }, { "package": "terra", "role": "Suggests" } ], "_owner": "cwru-sdle", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-01", "n": 3 }, { "week": "2026-04", "n": 2 }, { "week": "2026-05", "n": 9 }, { "week": "2026-20", "n": 1 } ], "_tags": [], "_stars": 2, "_contributors": [ { "user": "exelegch", "count": 1, "uuid": 101437786 } ], "_userbio": { "uuid": 5075116, "type": "organization", "name": "CWRU SDLE" }, "_downloads": { "count": 568, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/manureshed" }, "_devurl": "https://github.com/cwru-sdle/manureshed", "_pkgdown": "https://exelegch.github.io/manureshed-docs/", "_searchresults": 25, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manureshed.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/cwru-sdle/manureshed", "_realowner": "cwru-sdle", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2025-12-22" }, { "version": "0.1.1", "date": "2026-01-26" }, { "version": "0.1.2", "date": "2026-01-28" }, { "version": "0.1.3", "date": "2026-02-21" }, { "version": "0.1.4", "date": "2026-03-09" }, { "version": "0.1.5", "date": "2026-05-11" } ], "_exports": [ "add_centroid_coordinates", "add_texas_huc8", "agri_classify_complete", "agri_classify_complete_custom", "agri_classify_nitrogen", "agri_classify_nitrogen_custom", "agri_classify_phosphorus", "agri_classify_phosphorus_custom", "agri_process_nugis", "batch_analysis_enhanced", "batch_analysis_parallel", "batch_analysis_years", "benchmark_analysis", "calculate_cropland_threshold", "calculate_transition_probabilities", "check_builtin_data", "citation_info", "clean_category_names", "clear_data_cache", "compare_analyses", "compare_regions", "compare_scenarios", "CONUS_STATES", "convert_load_units", "create_analysis_report", "create_classification_summary", "create_network_plot", "download_all_data", "download_osf_data", "export_for_gis", "export_for_policy", "export_for_publication", "filter_by_state", "format_huc8", "get_cropland_threshold", "get_nutrient_colors", "get_region_definitions", "get_state_boundaries", "get_state_fips", "health_check", "integrate_complete", "integrate_wwtp_agricultural", "KG_TO_TONS", "launch_dashboard", "LBS_TO_KG", "LBS_TO_TONS", "list_available_years", "list_regions", "load_builtin_boundaries", "load_builtin_nugis", "load_builtin_wwtp", "load_user_wwtp", "MANURESHED_CRS", "map_agricultural_classification", "map_wwtp_columns", "map_wwtp_influence", "map_wwtp_points", "P2O5_TO_P", "plot_absolute_changes", "plot_before_after_comparison", "plot_impact_ratios", "quick_analysis", "quick_check", "quick_state_analysis", "run_builtin_analysis", "run_state_analysis", "save_analysis_summary", "save_centroid_data", "save_plot", "save_spatial_data", "save_transition_matrix", "summarize_results", "test_osf_connection", "view_cheatsheet", "wwtp_aggregate_by_boundaries", "wwtp_classify_sources", "wwtp_clean_data", "wwtp_filter_positive_loads", "wwtp_process_complete", "wwtp_to_spatial" ], "_help": [ { "page": "add_centroid_coordinates", "title": "Add Centroid Coordinates to Spatial Data", "topics": [ "add_centroid_coordinates" ] }, { "page": "add_texas_huc8", "title": "Add Texas HUC8 Data (Updated for OSF)", "topics": [ "add_texas_huc8" ] }, { "page": "agri_classify_complete", "title": "Complete Agricultural Classification Pipeline", "topics": [ "agri_classify_complete" ] }, { "page": "agri_classify_complete_custom", "title": "Complete Agricultural Classification Pipeline with Custom Efficiency Factors", "topics": [ "agri_classify_complete_custom" ] }, { "page": "agri_classify_nitrogen", "title": "Classify Agricultural Nitrogen Status", "topics": [ "agri_classify_nitrogen" ] }, { "page": "agri_classify_nitrogen_custom", "title": "Classify Agricultural Nitrogen Status with Custom Efficiency Factor", "topics": [ "agri_classify_nitrogen_custom" ] }, { "page": "agri_classify_phosphorus", "title": "Classify Agricultural Phosphorus Status", "topics": [ "agri_classify_phosphorus" ] }, { "page": "agri_classify_phosphorus_custom", "title": "Classify Agricultural Phosphorus Status with Custom Efficiency Factor", "topics": [ "agri_classify_phosphorus_custom" ] }, { "page": "agri_process_nugis", "title": "Process NuGIS Data for Manureshed Analysis", "topics": [ "agri_process_nugis" ] }, { "page": "batch_analysis_enhanced", "title": "Enhanced Batch Analysis with Full Visualizations", "topics": [ "batch_analysis_enhanced" ] }, { "page": "batch_analysis_parallel", "title": "Batch Analysis with Parallel Processing", "topics": [ "batch_analysis_parallel" ] }, { "page": "batch_analysis_years", "title": "Batch Analysis Across Multiple Years", "topics": [ "batch_analysis_years" ] }, { "page": "benchmark_analysis", "title": "Benchmark Analysis Performance", "topics": [ "benchmark_analysis" ] }, { "page": "calculate_cropland_threshold", "title": "Calculate Cropland Threshold for Exclusion", "topics": [ "calculate_cropland_threshold" ] }, { "page": "calculate_transition_probabilities", "title": "Calculate Spatial Transition Probabilities", "topics": [ "calculate_transition_probabilities" ] }, { "page": "check_builtin_data", "title": "Check Data Availability from OSF", "topics": [ "check_builtin_data" ] }, { "page": "citation_info", "title": "Display Package Citation Information", "topics": [ "citation_info" ] }, { "page": "clean_category_names", "title": "Clean Category Names for Display", "topics": [ "clean_category_names" ] }, { "page": "clean_text", "title": "Clean Text Data", "topics": [ "clean_text" ] }, { "page": "clear_data_cache", "title": "Clear Data Cache", "topics": [ "clear_data_cache" ] }, { "page": "compare_analyses", "title": "Compare Two Analysis Results", "topics": [ "compare_analyses" ] }, { "page": "compare_regions", "title": "Compare Multiple Regions", "topics": [ "compare_regions" ] }, { "page": "compare_scenarios", "title": "Compare Multiple Analysis Scenarios", "topics": [ "compare_scenarios" ] }, { "page": "CONUS_STATES", "title": "CONUS States", "topics": [ "CONUS_STATES" ] }, { "page": "convert_load_units", "title": "Convert Load Units to Tons", "topics": [ "convert_load_units" ] }, { "page": "create_analysis_report", "title": "Create Analysis Report", "topics": [ "create_analysis_report" ] }, { "page": "create_classification_summary", "title": "Create Classification Summary Table", "topics": [ "create_classification_summary" ] }, { "page": "create_network_plot", "title": "Create Network Plot from Transition Probabilities", "topics": [ "create_network_plot" ] }, { "page": "data_sources", "title": "NuGIS and EPA WWTP Data Sources", "topics": [ "data_sources" ] }, { "page": "download_all_data", "title": "Download All Datasets from OSF", "topics": [ "download_all_data" ] }, { "page": "download_osf_data", "title": "Download and Cache Data from OSF", "topics": [ "download_osf_data" ] }, { "page": "export_for_gis", "title": "Export Results for GIS Applications", "topics": [ "export_for_gis" ] }, { "page": "export_for_policy", "title": "Export for Policy Briefs", "topics": [ "export_for_policy" ] }, { "page": "export_for_publication", "title": "Export for Publication", "topics": [ "export_for_publication" ] }, { "page": "filter_by_state", "title": "Filter Data by State", "topics": [ "filter_by_state" ] }, { "page": "format_huc8", "title": "Format HUC8 Codes", "topics": [ "format_huc8" ] }, { "page": "get_cropland_threshold", "title": "Get Cropland Threshold by Scale", "topics": [ "get_cropland_threshold" ] }, { "page": "get_nutrient_colors", "title": "Default Color Schemes for Nutrient Classifications", "topics": [ "get_nutrient_colors" ] }, { "page": "get_region_definitions", "title": "Get Built-in Region Definitions", "topics": [ "get_region_definitions" ] }, { "page": "get_state_boundaries", "title": "Get State Boundaries for Mapping", "topics": [ "get_state_boundaries" ] }, { "page": "get_state_fips", "title": "Get State FIPS Code", "topics": [ "get_state_fips" ] }, { "page": "health_check", "title": "Check Package Health and Dependencies", "topics": [ "health_check" ] }, { "page": "integrate_complete", "title": "Complete Integration Pipeline (Updated)", "topics": [ "integrate_complete" ] }, { "page": "integrate_wwtp_agricultural", "title": "Integrate WWTP Data with Agricultural Classifications (Updated)", "topics": [ "integrate_wwtp_agricultural" ] }, { "page": "KG_TO_TONS", "title": "Conversion Factor: Kilograms to US Tons", "topics": [ "KG_TO_TONS" ] }, { "page": "launch_dashboard", "title": "Launch Interactive Manureshed Dashboard", "topics": [ "launch_dashboard" ] }, { "page": "LBS_TO_KG", "title": "Conversion Factor: Pounds to Kilograms", "topics": [ "LBS_TO_KG" ] }, { "page": "LBS_TO_TONS", "title": "Conversion Factor: Pounds to US Tons", "topics": [ "LBS_TO_TONS" ] }, { "page": "list_available_years", "title": "List Available Built-in Years", "topics": [ "list_available_years" ] }, { "page": "list_regions", "title": "List Available Regions", "topics": [ "list_regions" ] }, { "page": "load_builtin_boundaries", "title": "Load Built-in Spatial Boundaries from OSF", "topics": [ "load_builtin_boundaries" ] }, { "page": "load_builtin_nugis", "title": "Load Built-in NuGIS Data from OSF", "topics": [ "load_builtin_nugis" ] }, { "page": "load_builtin_wwtp", "title": "Load Built-in WWTP Data from OSF", "topics": [ "load_builtin_wwtp" ] }, { "page": "load_user_wwtp", "title": "Load User WWTP Data", "topics": [ "load_user_wwtp" ] }, { "page": "manureshed", "title": "manureshed: Manureshed Analysis with WWTP Integration", "topics": [ "manureshed-package", "manureshed" ] }, { "page": "MANURESHED_CRS", "title": "Standard CRS for Manureshed Analysis", "topics": [ "MANURESHED_CRS" ] }, { "page": "map_agricultural_classification", "title": "Create Agricultural Classification Map", "topics": [ "map_agricultural_classification" ] }, { "page": "map_wwtp_columns", "title": "Map WWTP Column Names to Standard Format", "topics": [ "map_wwtp_columns" ] }, { "page": "map_wwtp_influence", "title": "Create WWTP Influence Map", "topics": [ "map_wwtp_influence" ] }, { "page": "map_wwtp_points", "title": "Create WWTP Point Map", "topics": [ "map_wwtp_points" ] }, { "page": "P2O5_TO_P", "title": "Conversion Factor: P2O5 to P", "topics": [ "P2O5_TO_P" ] }, { "page": "plot_absolute_changes", "title": "Create Absolute Change Plot", "topics": [ "plot_absolute_changes" ] }, { "page": "plot_before_after_comparison", "title": "Create Before/After Comparison Plot", "topics": [ "plot_before_after_comparison" ] }, { "page": "plot_impact_ratios", "title": "Create Impact Ratio Plot", "topics": [ "plot_impact_ratios" ] }, { "page": "quick_analysis", "title": "Quick Analysis with Visualization", "topics": [ "quick_analysis" ] }, { "page": "quick_check", "title": "Quick Data Check", "topics": [ "quick_check" ] }, { "page": "quick_state_analysis", "title": "Quick State Analysis with Visualization", "topics": [ "quick_state_analysis" ] }, { "page": "run_builtin_analysis", "title": "Complete Manureshed Analysis Workflow (Built-in Data)", "topics": [ "run_builtin_analysis" ] }, { "page": "run_state_analysis", "title": "Run State-Level Analysis", "topics": [ "run_state_analysis" ] }, { "page": "save_analysis_summary", "title": "Save Analysis Summary", "topics": [ "save_analysis_summary" ] }, { "page": "save_centroid_data", "title": "Save Centroid Data", "topics": [ "save_centroid_data" ] }, { "page": "save_plot", "title": "Save Plot", "topics": [ "save_plot" ] }, { "page": "save_spatial_data", "title": "Save Spatial Data", "topics": [ "save_spatial_data" ] }, { "page": "save_transition_matrix", "title": "Save Transition Probability Matrix", "topics": [ "save_transition_matrix" ] }, { "page": "summarize_results", "title": "Print Summary of Analysis Results", "topics": [ "summarize_results" ] }, { "page": "test_osf_connection", "title": "Test OSF Connection", "topics": [ "test_osf_connection" ] }, { "page": "validate_columns", "title": "Validate Required Columns", "topics": [ "validate_columns" ] }, { "page": "view_cheatsheet", "title": "View Package Cheat Sheet", "topics": [ "view_cheatsheet" ] }, { "page": "wwtp_aggregate_by_boundaries", "title": "Aggregate WWTP Data by Spatial Boundaries", "topics": [ "wwtp_aggregate_by_boundaries" ] }, { "page": "wwtp_classify_sources", "title": "Classify WWTP Sources by Load Size", "topics": [ "wwtp_classify_sources" ] }, { "page": "wwtp_clean_data", "title": "Clean WWTP Data", "topics": [ "wwtp_clean_data" ] }, { "page": "wwtp_filter_positive_loads", "title": "Filter WWTP Data for Positive Loads", "topics": [ "wwtp_filter_positive_loads" ] }, { "page": "wwtp_process_complete", "title": "Complete WWTP Processing Pipeline", "topics": [ "wwtp_process_complete" ] }, { "page": "wwtp_to_spatial", "title": "Convert WWTP Data to Spatial Format", "topics": [ "wwtp_to_spatial" ] } ], "_readme": "https://github.com/cwru-sdle/manureshed/raw/HEAD/README.md", "_rundeps": [ "askpass", "class", "classInt", "cli", "cpp11", "curl", "DBI", "dplyr", "e1071", "farver", "generics", "ggplot2", "glue", "gtable", "httr", "igraph", "isoband", "jsonlite", "KernSmooth", "labeling", "lattice", "lifecycle", "magrittr", "MASS", "Matrix", "mime", "openssl", "pillar", "pkgconfig", "proxy", "purrr", "R6", "rappdirs", "RColorBrewer", "Rcpp", "rlang", "s2", "S7", "scales", "sf", "stringi", "stringr", "sys", "tibble", "tidyr", "tidyselect", "tigris", "units", "utf8", "uuid", "vctrs", "viridisLite", "withr", "wk" ], "_vignettes": [ { "source": "advanced-features.Rmd", "filename": "advanced-features.html", "title": "Advanced Features", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Custom Thresholds", "Understanding Thresholds", "Automatic Threshold Calculation", "State-Specific Analysis", "Single State Analysis", "Multi-State Comparison", "Batch Processing", "Multiple Years", "Parallel Processing", "Enhanced Batch Analysis", "Performance Optimization", "Benchmarking", "Memory Management", "Advanced Spatial Analysis", "Transition Probabilities", "Spatial Statistics", "Custom Analysis Workflows", "Research-Specific Analysis", "Time Series Analysis", "Data Export and Integration", "Export for Other Software", "Integration with Other Packages", "Quality Control", "Advanced Validation", "Tips for Advanced Users", "Performance Tips", "Reproducibility" ], "created": "2026-01-02 20:08:14", "modified": "2026-01-02 20:08:14", "commits": 1 }, { "source": "visualization-guide.Rmd", "filename": "visualization-guide.html", "title": "Creating Maps and Plots", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Quick Maps with quick_analysis()", "Step-by-Step Map Creation", "1. Get Analysis Results First", "2. Agricultural Classification Maps", "3. Combined Maps (Agricultural + WWTP)", "4. WWTP Facility Maps", "5. WWTP Influence Maps", "Comparison Plots", "Before/After WWTP Integration", "Network Plots", "Spatial Transition Networks", "Customizing Maps", "Save Options", "Custom Colors", "Working with Different Scales", "County Level", "HUC8 Watersheds", "HUC2 Regions", "State-Specific Maps", "Multi-Panel Figures", "Tips for Good Maps", "Map Quality", "Color Choices", "File Management", "Troubleshooting", "Common Issues" ], "created": "2026-01-02 20:08:14", "modified": "2026-01-02 20:08:14", "commits": 1 }, { "source": "getting-started.Rmd", "filename": "getting-started.html", "title": "Getting Started with manureshed", "author": "Olatunde D. Akanbi", "engine": "knitr::rmarkdown", "headings": [ "What is manureshed?", "View cheatsheet", "Quick Start - Complete Analysis", "Step-by-Step Analysis", "1. Check Available Data", "2. Basic Agricultural Analysis", "3. Add WWTP Data", "Understanding the Results", "Classifications", "Accessing Results", "Creating Maps", "Classification Maps", "WWTP Maps", "Working with Different Years", "Single Years", "Multiple Years", "Using Custom WWTP Data", "State-Specific Analysis", "Loading Individual Datasets", "Tips for Success", "Memory Management", "Quality Checks", "Next Steps", "Getting Help" ], "created": "2026-01-02 20:08:14", "modified": "2026-01-28 01:10:21", "commits": 2 }, { "source": "hub-site-selection.Rmd", "filename": "hub-site-selection.html", "title": "Hub Site Selection for Nutrient Recovery Operations", "engine": "knitr::rmarkdown", "headings": [ "Overview", "What the module does", "The 3 × 3 scoring framework", "Installation of optional dependencies", "Step 1 — Run run_builtin_analysis()", "Step 2 — Download the CAFO data", "Step 3 — Score hub sites", "Default usage", "Compute a single score", "With CDL raster (optional)", "Step 4 — Inspect results", "Step 5 — Map results", "Step 6 — Export results", "Multi-year analysis", "Varying the catchment radius", "Understanding the scoring dimensions", "Performance notes", "See also" ], "created": "2026-05-11 16:12:06", "modified": "2026-05-11 16:12:06", "commits": 1 }, { "source": "scenario-comparison.Rmd", "filename": "scenario-comparison.html", "title": "Scenario Comparison Analysis", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Basic Usage", "Simple Comparison: Agricultural vs. WWTP", "Understanding the Results", "1. Comparison Data", "2. Summary Statistics", "3. Visualization Plots", "Advanced Examples", "Multiple Scenarios", "Year-over-Year Comparison", "Scale Comparison", "Saving Results", "Save Plots", "Save Data", "Auto-save During Comparison", "Interpreting Results", "Understanding Deltas", "Key Metrics to Watch", "Use Cases", "Management Analysis", "Sensitivity Analysis", "Regional Comparison", "Tips and Best Practices", "1. Keep Comparisons Meaningful", "2. Name Scenarios Clearly", "3. Document Your Analysis", "4. Consider Statistical Significance", "Troubleshooting", "Different Scales", "Missing Data", "Related Functions", "See Also" ], "created": "2026-01-24 16:54:26", "modified": "2026-01-24 16:54:26", "commits": 1 }, { "source": "custom-efficiency-analyis.Rmd", "filename": "custom-efficiency-analyis.html", "title": "Sensitivity Analysis with Custom Efficiency Factors", "author": "Olatunde D. Akanbi", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Standard vs. Custom Efficiency Factors", "Basic Sensitivity Analysis", "Load Required Data", "Compare Different Nitrogen Efficiencies", "Visualize Sensitivity Results", "Phosphorus Sensitivity Analysis", "Combined Sensitivity Analysis", "Mapping Results Across Scenarios", "Interpreting Results", "Recommended Practice", "Example: Complete Sensitivity Workflow", "Summary", "References" ], "created": "2026-01-02 20:08:14", "modified": "2026-01-02 20:08:14", "commits": 1 }, { "source": "dashboard-guide.Rmd", "filename": "dashboard-guide.html", "title": "Using the Interactive Dashboard", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Installation Requirements", "Launching the Dashboard", "Dashboard Interface", "Main Components", "Sidebar Controls", "Analysis Parameters", "Action Buttons", "Using the Map Tab", "Interactive Map Features", "Map Navigation Tips", "Using the Statistics Tab", "Value Boxes", "Classification Distribution", "Surplus/Deficit Distribution", "Summary Statistics", "Using the Data Table Tab", "Interactive Table Features", "Useful Filters", "Help Tab", "Workflow Examples", "Example 1: Basic State Analysis", "Example 2: Compare Agricultural vs. Integrated", "Example 3: Year-over-Year Exploration", "Example 4: Threshold Sensitivity", "Example 5: Create Presentation Materials", "Downloading Results", "Data Download", "Using Downloaded Data", "Performance Tips", "For Faster Analysis", "Browser Performance", "Troubleshooting", "Dashboard Won't Launch", "Analysis Fails", "Map Not Displaying", "Value Boxes Show Zero", "Comparison with Programmatic Interface", "When to Use Dashboard", "When to Use R Code", "Hybrid Approach", "Sharing Results", "For Colleagues Without R", "For R Users", "For Presentations", "Accessibility Features", "Privacy and Security", "Advanced: Deploying for Teams", "Option 1: Shinyapps.io", "Option 2: RStudio Connect", "Option 3: Shiny Server", "Getting Help", "Related Vignettes", "Summary" ], "created": "2026-01-24 16:54:26", "modified": "2026-01-24 16:54:26", "commits": 1 }, { "source": "data-integration.Rmd", "filename": "data-integration.html", "title": "Using Your Own Data", "author": "Olatunde D. Akanbi", "engine": "knitr::rmarkdown", "headings": [ "Overview", "Using Custom WWTP Data", "For Years Outside 2007-2016", "Advanced Custom Data Integration", "Adding Other Nutrient Sources", "Working with Different Time Periods", "Custom Agricultural Data", "Data Validation and Quality Control", "Exporting Results", "Troubleshooting Common Issues", "WWTP Data Issues", "Agricultural Data Issues", "Getting Help", "Common Questions", "Function Help", "Getting More Help", "Handling Different Data Formats", "Standard EPA Format", "Different Units", "Different File Format", "Custom Column Names", "Manual WWTP Processing", "Unit Conversions", "Common Conversions", "Handling P2O5 vs P", "Working with Different Spatial Scales", "County Data (FIPS Codes)", "HUC8 Watersheds", "HUC2 Regions", "State-Specific Analysis", "Single State", "Multiple States", "Quality Control", "Validate Your Data", "Common Data Issues", "Working with Multiple Years", "Time Series Analysis", "Data Management Tips", "File Organization", "Memory Management", "Example: Complete Custom Workflow", "Integration Issues", "Best Practices for Custom Data", "Data Documentation", "Quality Assurance Workflow", "Reporting Issues" ], "created": "2026-01-02 20:08:14", "modified": "2026-01-02 20:08:14", "commits": 1 } ], "_score": 5.903089986991944, "_indexed": true, "_nocasepkg": "manureshed", "_universes": [ "cwru-sdle" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.5", "date": "2026-06-10T06:25:29.000Z", "distro": "noble", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "35ce69dd7ca0e15a71a40aad534a7cc8b94afc6516bdbe43b295efa552aa3de4", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" }, { "r": "4.6.0", "os": "linux", "version": "0.1.5", "date": "2026-06-10T06:25:19.000Z", "distro": "noble", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "cdc1ae24fedd80abdc6e5743a327919206a19d71d148b2bff33d1539433ff78d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" }, { "r": "4.5.3", "os": "mac", "version": "0.1.5", "date": "2026-06-10T06:24:31.000Z", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "e6d8cbc9ea5793ce327ca53865229e52b94180c42e69618df9e28981f6e76b86", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" }, { "r": "4.6.0", "os": "mac", "version": "0.1.5", "date": "2026-06-10T06:24:04.000Z", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "84489aa73e52253b049cdee063a778066e2fcd23cbc9e39dcf784fcb525e1e82", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.5", "date": "2026-06-10T06:25:22.000Z", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "838359ddb9c49591889dc4a39ca461132f5761a2de48a49832bae90566b295fa", "status": "success", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" }, { "r": "4.7.0", "os": "win", "version": "0.1.5", "date": "2026-06-10T06:23:56.000Z", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "e8359e1e28f9d14215f900e6b090670ae59dc01149d3916f50cacb5ccae0cc67", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" }, { "r": "4.5.3", "os": "win", "version": "0.1.5", "date": "2026-06-10T06:23:46.000Z", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "167a4e25d4aa3708aadcd4ba9e2576185ceb6cb5e4c7ddffdbb0918e24aca846", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" }, { "r": "4.6.0", "os": "win", "version": "0.1.5", "date": "2026-06-10T06:23:48.000Z", "commit": "8ba8ec237dd7eb064ab26423351c469832343744", "fileid": "2df743f6e3a42745f4e9d03792946ba27e2a0ae7fa9a2c3c3edebd8518cbcba7", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/cwru-sdle/actions/runs/27257290891" } ] }