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  "Package": "AlpsNMR",
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  "Title": "Automated spectraL Processing System for NMR",
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  "Date": "2025-09-24",
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  "Authors@R": "c(\nperson(given = \"Ivan\",\nfamily = \"Montoliu Roura\",\nemail = \"Ivan.MontoliuRoura@rd.nestle.com\",\nrole = c(\"aut\")),\nperson(given = \"Sergio\",\nfamily = \"Oller Moreno\",\nemail = \"sergioller@gmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-8994-1549\")),\nperson(given = \"Francisco\",\nfamily = \"Madrid Gambin\",\nemail = \"fmadrid@ibecbarcelona.eu\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0001-9333-0014\")),\nperson(given = \"Luis\",\nfamily = \"Fernandez\",\nemail = \"lfernandez@ibecbarcelona.eu\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0001-9790-6287\")),\nperson(given = \"Laura\",\nfamily = \"López Sánchez\",\nrole = c(\"ctb\")),\nperson(given = \"Héctor\",\nfamily = \"Gracia Cabrera\",\nemail = \"hgracia@ibecbarcelona.eu\",\nrole = c(\"aut\")),\nperson(given = \"Santiago\",\nfamily = \"Marco Colás\",\nemail = \"smarco@ibecbarcelona.eu\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0003-2663-2965\")),\nperson(given = \"Nestlé Institute of Health Sciences\",\nrole = \"cph\"),\nperson(given = \"Institute for Bioengineering of Catalonia\",\nrole = \"cph\"),\nperson(given = \"Miller\",\nfamily = \"Jack\",\nemail = \"jack.miller@physics.org\",\nrole=c(\"ctb\"),\ncomment = c(ORCID = \"0000-0002-6258-1299\", \"Autophase wrapper, ASICS export\"))\n)",
  "Description": "Reads Bruker NMR data directories both zipped and\nunzipped. It provides automated and efficient signal processing\nfor untargeted NMR metabolomics. It is able to interpolate the\nsamples, detect outliers, exclude regions, normalize, detect\npeaks, align the spectra, integrate peaks, manage metadata and\nvisualize the spectra. After spectra proccessing, it can apply\nmultivariate analysis on extracted data. Efficient plotting\nwith 1-D data is also available. Basic reading of 1D ACD/Labs\nexported JDX samples is also available.",
  "License": "MIT + file LICENSE",
  "URL": "https://sipss.github.io/AlpsNMR/, https://github.com/sipss/AlpsNMR",
  "BugReports": "https://github.com/sipss/AlpsNMR/issues",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:54:28 UTC",
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  "Packaged": {
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    "User": "root"
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  "Author": "Ivan Montoliu Roura [aut],\nSergio Oller Moreno [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-8994-1549>),\nFrancisco Madrid Gambin [aut] (ORCID:\n<https://orcid.org/0000-0001-9333-0014>),\nLuis Fernandez [aut] (ORCID: <https://orcid.org/0000-0001-9790-6287>),\nLaura López Sánchez [ctb],\nHéctor Gracia Cabrera [aut],\nSantiago Marco Colás [aut] (ORCID:\n<https://orcid.org/0000-0003-2663-2965>),\nNestlé Institute of Health Sciences [cph],\nInstitute for Bioengineering of Catalonia [cph],\nMiller Jack [ctb] (ORCID: <https://orcid.org/0000-0002-6258-1299>,\nAutophase wrapper, ASICS export)",
  "Maintainer": "Sergio Oller Moreno <sergioller@gmail.com>",
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      "title": "Parameters for urine samples profiling",
      "object": "Parameters_urine",
      "file": "Parameters_urine.rda",
      "class": [
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      "fields": [
        "Parameter",
        "Value"
      ],
      "rows": 14,
      "table": true,
      "tojson": true
    },
    {
      "name": "ROI_blood",
      "title": "ROIs for blood (plasma/serum) samples",
      "object": "ROI_blood",
      "file": "ROI_blood.rda",
      "class": [
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      "fields": [
        "ROI.left.edge..ppm.",
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        "Chemical.shift.tolerance..ppm.",
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        "HMDB_code"
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      "table": true,
      "tojson": true
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    {
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      "title": "ROIs for cell samples",
      "object": "ROI_cell",
      "file": "ROI_cell.rda",
      "class": [
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      "fields": [
        "ROI.left.edge..ppm.",
        "ROI.right.edge..ppm.",
        "Quantification.Mode",
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        "Quantification.Signal",
        "Chemical.shift.ppm.",
        "Chemical.shift.tolerance..ppm.",
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        "J.coupling..Hz.",
        "Roof.effect",
        "HMDB_code"
      ],
      "rows": 44,
      "table": true,
      "tojson": true
    },
    {
      "name": "ROI_urine",
      "title": "ROIs for urine samples",
      "object": "ROI_urine",
      "file": "ROI_urine.rda",
      "class": [
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      "fields": [
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        "Quantification.Mode",
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        "Quantification.Signal",
        "Chemical.shift",
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        "Half.bandwidth",
        "Multiplicity",
        "J.coupling",
        "Roof.effect",
        "HMDB.code"
      ],
      "rows": 59,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "AlpsNMR-package",
      "title": "AlpsNMR: Automated spectraL Processing System for NMR",
      "topics": [
        "AlpsNMR-package",
        "AlpsNMR"
      ]
    },
    {
      "page": "sub-.nmr_dataset",
      "title": "Extract parts of an nmr_dataset",
      "concept": [
        "subsetting functions"
      ],
      "topics": [
        "[.nmr_dataset"
      ]
    },
    {
      "page": "sub-.nmr_dataset_1D",
      "title": "Extract parts of an nmr_dataset_1D",
      "concept": [
        "nmr_dataset_1D functions",
        "subsetting functions"
      ],
      "topics": [
        "[.nmr_dataset_1D"
      ]
    },
    {
      "page": "sub-.nmr_dataset_peak_table",
      "title": "Extract parts of an nmr_dataset_peak_table",
      "concept": [
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      ],
      "topics": [
        "[.nmr_dataset_peak_table"
      ]
    },
    {
      "page": "bp_kfold_VIP_analysis",
      "title": "K-fold bootstrap and permutation over PLS-VIP",
      "topics": [
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      ]
    },
    {
      "page": "bp_VIP_analysis",
      "title": "Bootstrap and permutation over PLS-VIP",
      "topics": [
        "bp_VIP_analysis"
      ]
    },
    {
      "page": "download_MTBLS242",
      "title": "Download MTBLS242",
      "topics": [
        "download_MTBLS242"
      ]
    },
    {
      "page": "file_lister",
      "title": "NMR file lister",
      "topics": [
        "file_lister"
      ]
    },
    {
      "page": "files_to_rDolphin",
      "title": "Files to rDoplhin",
      "concept": [
        "import/export functions"
      ],
      "topics": [
        "files_to_rDolphin"
      ]
    },
    {
      "page": "filter.nmr_dataset_family",
      "title": "Keep samples based on metadata column criteria",
      "concept": [
        "subsetting functions"
      ],
      "topics": [
        "filter.nmr_dataset_family"
      ]
    },
    {
      "page": "format.nmr_dataset",
      "title": "Format for nmr_dataset",
      "concept": [
        "class helper functions"
      ],
      "topics": [
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      ]
    },
    {
      "page": "format.nmr_dataset_1D",
      "title": "format for nmr_dataset_1D",
      "concept": [
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        "nmr_dataset_1D functions"
      ],
      "topics": [
        "format.nmr_dataset_1D"
      ]
    },
    {
      "page": "format.nmr_dataset_peak_table",
      "title": "Format for nmr_dataset_peak_table",
      "concept": [
        "class helper functions"
      ],
      "topics": [
        "format.nmr_dataset_peak_table"
      ]
    },
    {
      "page": "get_integration_with_metadata",
      "title": "Get integrals with metadata from integrate peak positions",
      "concept": [
        "nmr_dataset_1D functions",
        "peak integration functions"
      ],
      "topics": [
        "get_integration_with_metadata"
      ]
    },
    {
      "page": "hmdb",
      "title": "The Human Metabolome DataBase multiplet table",
      "topics": [
        "hmdb"
      ]
    },
    {
      "page": "HMDB_blood",
      "title": "The Human Metabolome DataBase multiplet table: blood metabolites normally found in NMR-based metabolomics",
      "topics": [
        "HMDB_blood"
      ]
    },
    {
      "page": "HMDB_cell",
      "title": "The Human Metabolome DataBase multiplet table: cell metabolites normally found in NMR-based metabolomics",
      "topics": [
        "HMDB_cell"
      ]
    },
    {
      "page": "HMDB_urine",
      "title": "The Human Metabolome DataBase multiplet table: urine metabolites normally found in NMR-based metabolomics",
      "topics": [
        "HMDB_urine"
      ]
    },
    {
      "page": "is.nmr_dataset",
      "title": "Object is of nmr_dataset class",
      "topics": [
        "is.nmr_dataset"
      ]
    },
    {
      "page": "is.nmr_dataset_1D",
      "title": "Object is of nmr_dataset_1D class",
      "concept": [
        "class helper functions",
        "nmr_dataset_1D functions"
      ],
      "topics": [
        "is.nmr_dataset_1D"
      ]
    },
    {
      "page": "is.nmr_dataset_peak_table",
      "title": "Object is of nmr_dataset_peak_table class",
      "concept": [
        "class helper functions"
      ],
      "topics": [
        "is.nmr_dataset_peak_table"
      ]
    },
    {
      "page": "load_and_save_functions",
      "title": "nmr_dataset_load",
      "concept": [
        "import/export functions"
      ],
      "topics": [
        "load_and_save_functions",
        "nmr_dataset_load",
        "nmr_dataset_save"
      ]
    },
    {
      "page": "models_stability_plot_bootstrap",
      "title": "Models stability plot",
      "topics": [
        "models_stability_plot_bootstrap"
      ]
    },
    {
      "page": "models_stability_plot_plsda",
      "title": "Models stability plot",
      "topics": [
        "models_stability_plot_plsda"
      ]
    },
    {
      "page": "new_nmr_dataset",
      "title": "Create an nmr_dataset object",
      "concept": [
        "class helper functions"
      ],
      "topics": [
        "new_nmr_dataset"
      ]
    },
    {
      "page": "new_nmr_dataset_1D",
      "title": "Creates a new 1D nmr_dataset object from scratch",
      "concept": [
        "class helper functions"
      ],
      "topics": [
        "new_nmr_dataset_1D"
      ]
    },
    {
      "page": "new_nmr_dataset_peak_table",
      "title": "Creates a new nmr_dataset_peak_table object from scratch",
      "concept": [
        "class helper functions"
      ],
      "topics": [
        "new_nmr_dataset_peak_table"
      ]
    },
    {
      "page": "nmr_align",
      "title": "Align NMR spectra",
      "concept": [
        "alignment functions",
        "peak alignment functions"
      ],
      "topics": [
        "nmr_align"
      ]
    },
    {
      "page": "nmr_align_find_ref",
      "title": "Find alignment reference",
      "concept": [
        "alignment functions",
        "peak alignment functions"
      ],
      "topics": [
        "nmr_align_find_ref"
      ]
    },
    {
      "page": "nmr_autophase",
      "title": "Rephase 1D NMR data",
      "topics": [
        "nmr_autophase"
      ]
    },
    {
      "page": "nmr_baseline_estimation",
      "title": "Estimate the baseline on an nmr_dataset_1D object, using baseline::baseline.als.",
      "concept": [
        "baseline removal functions"
      ],
      "topics": [
        "nmr_baseline_estimation"
      ]
    },
    {
      "page": "nmr_baseline_removal",
      "title": "Baseline Removal NMR",
      "concept": [
        "baseline removal functions"
      ],
      "topics": [
        "nmr_baseline_removal"
      ]
    },
    {
      "page": "nmr_baseline_threshold",
      "title": "Threshold estimation for peak detection",
      "concept": [
        "peak detection functions"
      ],
      "topics": [
        "nmr_baseline_threshold"
      ]
    },
    {
      "page": "nmr_baseline_threshold_plot",
      "title": "Plot the baseline thresholds",
      "topics": [
        "nmr_baseline_threshold_plot"
      ]
    },
    {
      "page": "nmr_batman",
      "title": "Batman helpers",
      "concept": [
        "batman functions"
      ],
      "topics": [
        "nmr_batman",
        "nmr_batman_export_dataset",
        "nmr_batman_metabolites_list",
        "nmr_batman_multi_data_user",
        "nmr_batman_multi_data_user_hmdb",
        "nmr_batman_write_options"
      ]
    },
    {
      "page": "nmr_batman_options",
      "title": "Batman Options helper",
      "concept": [
        "batman functions"
      ],
      "topics": [
        "nmr_batman_options"
      ]
    },
    {
      "page": "nmr_build_peak_table",
      "title": "Build a peak table from the clustered peak list",
      "topics": [
        "nmr_build_peak_table"
      ]
    },
    {
      "page": "nmr_data",
      "title": "Set/Return the full spectra matrix",
      "concept": [
        "import/export functions"
      ],
      "topics": [
        "nmr_data",
        "nmr_data.nmr_dataset_1D",
        "nmr_data<-",
        "nmr_data<-.nmr_dataset_1D"
      ]
    },
    {
      "page": "nmr_data_1r_to_SummarizedExperiment",
      "title": "Export 1D NMR data to SummarizedExperiment",
      "topics": [
        "nmr_data_1r_to_SummarizedExperiment"
      ]
    },
    {
      "page": "nmr_data_analysis",
      "title": "Data analysis",
      "topics": [
        "nmr_data_analysis"
      ]
    },
    {
      "page": "nmr_data_analysis_method",
      "title": "Create method for NMR data analysis",
      "topics": [
        "new_nmr_data_analysis_method",
        "nmr_data_analysis_method"
      ]
    },
    {
      "page": "nmr_dataset",
      "title": "nmr_dataset (S3 class)",
      "concept": [
        "AlpsNMR dataset objects"
      ],
      "topics": [
        "nmr_dataset"
      ]
    },
    {
      "page": "nmr_dataset_1D",
      "title": "nmr_dataset_1D (S3 class)",
      "topics": [
        "nmr_dataset_1D"
      ]
    },
    {
      "page": "nmr_dataset_family",
      "title": "nmr_dataset like objects (S3 classes)",
      "concept": [
        "AlpsNMR dataset objects"
      ],
      "topics": [
        "nmr_dataset_family"
      ]
    },
    {
      "page": "nmr_dataset_peak_table",
      "title": "nmr_dataset_peak_table (S3 class)",
      "topics": [
        "as.data.frame.nmr_dataset_peak_table",
        "nmr_dataset_peak_table"
      ]
    },
    {
      "page": "nmr_dataset_peak_table_to_SummarizedExperiment",
      "title": "Export nmr_dataset_peak_table to SummarizedExperiment",
      "topics": [
        "nmr_dataset_peak_table_to_SummarizedExperiment"
      ]
    },
    {
      "page": "nmr_detect_peaks",
      "title": "Peak detection for NMR",
      "concept": [
        "peak detection functions"
      ],
      "topics": [
        "nmr_detect_peaks"
      ]
    },
    {
      "page": "nmr_detect_peaks_plot",
      "title": "Plot peak detection results",
      "concept": [
        "peak detection functions"
      ],
      "topics": [
        "nmr_detect_peaks_plot"
      ]
    },
    {
      "page": "nmr_detect_peaks_plot_overview",
      "title": "Overview of the peak detection results",
      "concept": [
        "peak detection functions"
      ],
      "topics": [
        "nmr_detect_peaks_plot_overview"
      ]
    },
    {
      "page": "nmr_detect_peaks_plot_peaks",
      "title": "Plot multiple peaks from a peak list",
      "topics": [
        "nmr_detect_peaks_plot_peaks"
      ]
    },
    {
      "page": "nmr_detect_peaks_tune_snr",
      "title": "Diagnose SNR threshold in peak detection",
      "concept": [
        "peak detection functions"
      ],
      "topics": [
        "nmr_detect_peaks_tune_snr"
      ]
    },
    {
      "page": "nmr_exclude_region",
      "title": "Exclude region from samples",
      "concept": [
        "basic functions"
      ],
      "topics": [
        "nmr_exclude_region",
        "nmr_exclude_region.nmr_dataset_1D"
      ]
    },
    {
      "page": "nmr_export_data_1r",
      "title": "Export 1D NMR data to a CSV file",
      "topics": [
        "nmr_export_data_1r"
      ]
    },
    {
      "page": "nmr_get_peak_distances",
      "title": "Compute peak to peak distances",
      "topics": [
        "nmr_get_peak_distances"
      ]
    },
    {
      "page": "nmr_identify_regions_blood",
      "title": "NMR peak identification (plasma/serum samples)",
      "concept": [
        "peak detection functions",
        "peak integration functions"
      ],
      "topics": [
        "nmr_identify_regions_blood"
      ]
    },
    {
      "page": "nmr_identify_regions_cell",
      "title": "NMR peak identification (cell samples)",
      "concept": [
        "peak detection functions",
        "peak integration functions"
      ],
      "topics": [
        "nmr_identify_regions_cell"
      ]
    },
    {
      "page": "nmr_identify_regions_urine",
      "title": "NMR peak identification (urine samples)",
      "concept": [
        "peak detection functions",
        "peak integration functions"
      ],
      "topics": [
        "nmr_identify_regions_urine"
      ]
    },
    {
      "page": "nmr_integrate_peak_positions",
      "title": "Integrate peak positions",
      "concept": [
        "nmr_dataset_1D functions",
        "peak integration functions"
      ],
      "topics": [
        "nmr_integrate_peak_positions"
      ]
    },
    {
      "page": "nmr_integrate_regions",
      "title": "Integrate regions",
      "concept": [
        "nmr_dataset_1D functions",
        "peak detection functions",
        "peak integration functions"
      ],
      "topics": [
        "nmr_integrate_regions",
        "nmr_integrate_regions.nmr_dataset_1D"
      ]
    },
    {
      "page": "nmr_interpolate_1D",
      "title": "Interpolate a set of 1D NMR Spectra",
      "topics": [
        "nmr_interpolate_1D",
        "nmr_interpolate_1D.nmr_dataset"
      ]
    },
    {
      "page": "nmr_meta_add",
      "title": "Add metadata to an nmr_dataset object",
      "concept": [
        "metadata functions",
        "nmr_dataset functions",
        "nmr_dataset_1D functions",
        "nmr_dataset_peak_table functions"
      ],
      "topics": [
        "nmr_meta_add",
        "nmr_meta_add_tidy_excel"
      ]
    },
    {
      "page": "nmr_meta_export",
      "title": "Export Metadata to an Excel file",
      "concept": [
        "import/export functions",
        "metadata functions",
        "nmr_dataset functions",
        "nmr_dataset_1D functions",
        "nmr_dataset_peak_table functions"
      ],
      "topics": [
        "nmr_meta_export"
      ]
    },
    {
      "page": "nmr_meta_get",
      "title": "Get metadata",
      "concept": [
        "metadata functions",
        "nmr_dataset functions",
        "nmr_dataset_1D functions",
        "nmr_dataset_peak_table functions"
      ],
      "topics": [
        "nmr_meta_get"
      ]
    },
    {
      "page": "nmr_meta_get_column",
      "title": "Get a single metadata column",
      "concept": [
        "metadata functions",
        "nmr_dataset functions",
        "nmr_dataset_1D functions",
        "nmr_dataset_peak_table functions"
      ],
      "topics": [
        "nmr_meta_get_column"
      ]
    },
    {
      "page": "nmr_meta_groups",
      "title": "Get the names of metadata groups",
      "concept": [
        "metadata functions"
      ],
      "topics": [
        "nmr_meta_groups"
      ]
    },
    {
      "page": "nmr_normalize",
      "title": "Normalize nmr_dataset_1D samples",
      "concept": [
        "basic functions"
      ],
      "topics": [
        "nmr_normalize",
        "nmr_normalize_extra_info"
      ]
    },
    {
      "page": "nmr_pca_build_model",
      "title": "Build a PCA on for an nmr_dataset",
      "concept": [
        "PCA related functions"
      ],
      "topics": [
        "nmr_pca_build_model",
        "nmr_pca_build_model.nmr_dataset_1D"
      ]
    },
    {
      "page": "nmr_pca_outliers",
      "title": "Compute PCA residuals and score distance for each sample",
      "concept": [
        "PCA related functions",
        "outlier detection functions"
      ],
      "topics": [
        "nmr_pca_outliers"
      ]
    },
    {
      "page": "nmr_pca_outliers_filter",
      "title": "Exclude outliers",
      "concept": [
        "PCA related functions",
        "outlier detection functions",
        "subsetting functions"
      ],
      "topics": [
        "nmr_pca_outliers_filter"
      ]
    },
    {
      "page": "nmr_pca_outliers_plot",
      "title": "Plot for outlier detection diagnostic",
      "concept": [
        "PCA related functions",
        "outlier detection functions"
      ],
      "topics": [
        "nmr_pca_outliers_plot"
      ]
    },
    {
      "page": "nmr_pca_outliers_robust",
      "title": "Outlier detection through robust PCA",
      "concept": [
        "PCA related functions",
        "outlier detection functions"
      ],
      "topics": [
        "nmr_pca_outliers_robust"
      ]
    },
    {
      "page": "nmr_pca_plots",
      "title": "Plotting functions for PCA",
      "concept": [
        "PCA related functions"
      ],
      "topics": [
        "nmr_pca_loadingplot",
        "nmr_pca_plots",
        "nmr_pca_plot_variance",
        "nmr_pca_scoreplot"
      ]
    },
    {
      "page": "nmr_peak_clustering",
      "title": "Peak clustering",
      "topics": [
        "nmr_peak_clustering"
      ]
    },
    {
      "page": "nmr_peak_clustering_plot",
      "title": "Plot clustering results",
      "topics": [
        "nmr_peak_clustering_plot"
      ]
    },
    {
      "page": "nmr_ppm_resolution",
      "title": "PPM resolution of the spectra",
      "concept": [
        "nmr_dataset_1D functions"
      ],
      "topics": [
        "nmr_ppm_resolution",
        "nmr_ppm_resolution.nmr_dataset",
        "nmr_ppm_resolution.nmr_dataset_1D"
      ]
    },
    {
      "page": "nmr_read_bruker_fid",
      "title": "Read Free Induction Decay file",
      "concept": [
        "import/export functions"
      ],
      "topics": [
        "nmr_read_bruker_fid"
      ]
    },
    {
      "page": "nmr_read_samples",
      "title": "Read NMR samples",
      "concept": [
        "import/export functions"
      ],
      "topics": [
        "nmr_read_samples",
        "nmr_read_samples_dir"
      ]
    },
    {
      "page": "nmr_zip_bruker_samples",
      "title": "Create one zip file for each brucker sample path",
      "concept": [
        "import/export functions"
      ],
      "topics": [
        "nmr_zip_bruker_samples"
      ]
    },
    {
      "page": "Parameters_blood",
      "title": "to rDolphin",
      "topics": [
        "Parameters_blood"
      ]
    },
    {
      "page": "Parameters_cell",
      "title": "Parameters for cell samples profiling",
      "topics": [
        "Parameters_cell"
      ]
    },
    {
      "page": "Parameters_urine",
      "title": "Parameters for urine samples profiling",
      "topics": [
        "Parameters_urine"
      ]
    },
    {
      "page": "Peak_detection",
      "title": "Peak detection for NMR",
      "topics": [
        "Peak_detection"
      ]
    },
    {
      "page": "peaklist_accept_peaks",
      "title": "Peak list: Create an 'accepted' column based on some criteria",
      "topics": [
        "peaklist_accept_peaks"
      ]
    },
    {
      "page": "peaklist_fit_lorentzians",
      "title": "Fit lorentzians to each peak to estimate areas",
      "topics": [
        "peaklist_fit_lorentzians"
      ]
    },
    {
      "page": "permutation_test_model",
      "title": "Permutation test",
      "topics": [
        "permutation_test_model"
      ]
    },
    {
      "page": "permutation_test_plot",
      "title": "Permutation test plot",
      "topics": [
        "permutation_test_plot"
      ]
    },
    {
      "page": "Pipelines",
      "title": "Pipelines",
      "concept": [
        "alignment functions",
        "import/export functions",
        "metadata functions",
        "outlier detection functions",
        "peak detection functions",
        "peak integration functions",
        "pipeline functions"
      ],
      "topics": [
        "Pipelines",
        "pipe_add_metadata",
        "pipe_exclude_regions",
        "pipe_filter_samples",
        "pipe_interpolate_1D",
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