{ "_id": "6a1d691a1d7bb097a0a4ea23", "Type": "Package", "Package": "CBASSED50", "Title": "Process CBASS-Derived PAM Data", "Version": "0.2.0", "Authors@R": "c(\nperson(given = \"Yulia\", family = \"Iakovleva\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0002-0202-7245\")),\nperson(given = \"Luigi\", family = \"Colin\",\nemail = \"reefgenomics@gmail.com\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-6966-2817\")),\nperson(given = \"Christian Robert\", family = \"Voolstra\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0003-4555-3795\")))", "Maintainer": "Luigi Colin ", "Description": "Tools to process CBASS-derived PAM data efficiently.\nMinimal requirements are PAM-based photosynthetic efficiency\ndata (or data from any other continuous variable that changes\nwith temperature, e.g. relative bleaching scores) from 4 coral\nsamples (nubbins) subjected to 4 temperature profiles of at\nleast 2 colonies from 1 coral species from 1 site. Please refer\nto the following CBASS (Coral Bleaching Automated Stress\nSystem) papers for in-depth information regarding CBASS acute\nthermal stress assays, experimental design considerations, and\nED5/ED50/ED95 thermal parameters: Nicolas R. Evensen et al.\n(2023) Christian R. Voolstra et al.\n(2020) Christian R. Voolstra et al.\n(2025) .", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.3.2", "Config/testthat/edition": "3", "Date": "2025-05-28", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-01 11:08:49 UTC", "User": "root" }, "Author": "Yulia Iakovleva [aut] (ORCID:\n), Luigi Colin [aut,\ncre] (ORCID: ),\nChristian Robert Voolstra [aut] (ORCID:\n)", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2025-06-06 12:50:08 UTC", "RemoteUrl": "https://github.com/cran/CBASSED50", "RemoteRef": "HEAD", "RemoteSha": "f659cbd53d2d3ea82dc5475a7017a71318f219a6", "MD5sum": "3e330bbf7274c54f0a9d3a7292e837ba", "_user": "cran", "_type": "src", "_file": "CBASSED50_0.2.0.tar.gz", "_fileid": "c51bfcb58408f3614c31f00d6cbc3c04414febe60b0a9ef810e7de92b20c5e90", "_filesize": 181112, "_sha256": "c51bfcb58408f3614c31f00d6cbc3c04414febe60b0a9ef810e7de92b20c5e90", "_created": "2026-06-01T11:08:49.000Z", "_published": "2026-06-01T11:12:26.606Z", 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{ "page": "exploratory_tr_curve", "title": "Plot an exploratory temperature response curve.", "topics": [ "exploratory_tr_curve" ] }, { "page": "fit_curve_eds", "title": "Fit dose-response models and calculate summary statistics for ED5, ED50, and ED95 values.", "topics": [ "fit_curve_eds" ] }, { "page": "fit_drms", "title": "Fit Dynamic Regression Models (DRMs)", "topics": [ "fit_drms" ] }, { "page": "get_all_eds_by_grouping_property", "title": "Get ED5s, ED50s and ED95s by Grouping Property", "topics": [ "get_all_eds_by_grouping_property" ] }, { "page": "get_ed50_by_grouping_property", "title": "Get ED50 by Grouping Property", "topics": [ "get_ed50_by_grouping_property" ] }, { "page": "get_predicted_pam_values", "title": "Get Predicted PAM Values", "topics": [ "get_predicted_pam_values" ] }, { "page": "mandatory_columns", "title": "Get the names of mandatory columns for the dataset.", "topics": [ "mandatory_columns" ] }, { "page": "plot_ED50_box", "title": "Plot a boxplot of ED50 values for different species and conditions.", "topics": [ "plot_ED50_box" ] }, { "page": "plot_model_curve", "title": "Plot the model curve with predicted PAM values and confidence intervals.", "topics": [ "plot_model_curve" ] }, { "page": "predict_temperature_values", "title": "Predict the temperature values", "topics": [ "predict_temperature_values" ] }, { "page": "preprocess_dataset", "title": "Preprocesses the data by converting and checking column data types.", "topics": [ "preprocess_dataset" ] }, { "page": "process_dataset", "title": "Experimental Features for CBASS Dataset Analysis", "topics": [ "process_dataset" ] }, { "page": "read_data", "title": "Read Data Function", "topics": [ "read_data" ] }, { "page": "transform_predictions_to_long_dataframe", "title": "Transform Predictions to a Long-Format DataFrame", "topics": [ "transform_predictions_to_long_dataframe" ] }, { "page": "validate_cbass_dataset", "title": "Validate CBASS Dataset", "topics": [ "validate_cbass_dataset" ] 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