| add_created_by | Add createdBy key to metdata |
| addTSidToLipd | Add TSid where missing in a LiPD file |
| ask_how_many | Ask if user wants to read one file or a directory with... |
| as.lipd | Convert a compatible object into a LiPD Structure |
| as.lipdTs | Convert a compatible object into a lipd TS Structure |
| as.lipdTsTibble | Convert a compatible object into a lipd TS Tibble object |
| as.lipdTsTibbleLong | Convert a compatible object into a lipd TS Tibble long object |
| as.multiLipd | Convert a compatible object into a multiLiPD Structure |
| browse_dialog | Open a file browsing gui to let the user pick a file or... |
| build_structure | Before you place a table, you must have the structure leading... |
| cbind.NA | handle NAs in cbind |
| cconv | Neotoma chron conversion metadata |
| check_match | Compare the query value to the time series value. Does it... |
| checkZipMd5 | Compare the MD5 sums for the queryTable zip between locally... |
| clean_csv | Replace all blank values in csv matrices |
| collapse_block | Collapses blocks: calibration, physicalSample, hasResolution,... |
| collapse_block_indexed | Collapses blocks: funding, publication calibration,... |
| collapse_column | Collapse time series column. Compile column entries and place... |
| collapse_table | Collapse time series section; paleo or chron |
| collapse_table_root | Collapse time series table root. All keys listed below are... |
| collapseTs | Collapse time series into LiPD dataset form |
| combineInterpretationByScope | Combine interpretations by scope |
| convert_dsid_to_path | Convert datasetId to url to lipdverse lipd file |
| createChangelog | Create a changelog by comparing two LiPD files |
| createColumn | Create a column in a LiPD object |
| createDatasetId | Create a random Dataset ID for a LiPD dataset |
| createMarkdownChangelog | Create a Markdown representation of a LiPD changelog |
| create_range | Create the range for ensemble table "number" field |
| create_tmp_dir | 'Create' a temp directory (really its the same directory path... |
| createTSid | Create a random TSid |
| download_from_url | Download a LiPD file from a URL |
| duplicateTable | Duplicate a table in a LiPD file |
| export_model | Index model tables |
| export_section | Index a section. paleoData or chronData |
| extractTs | Extract time series from LiPD data |
| filterTs | Find all the time series objects that match a given search... |
| find_data_dir | Use a recursive file search to find the "data" directory of a... |
| fix_doi | Switch DOI from BibJSON structure 'identifier' key to a root... |
| formatCitation | Format citation from 'pub' portion of LiPD file |
| getChangelog | Get one instance from a LiPD changelog |
| getChronDataNeotoma2 | get chronData info from neotoma |
| get_csv_from_columns | Parse metadata and csv from columns |
| get_csv_from_metadata | Get csv "values" fields from metadata. |
| get_csv_from_model | Parse metadata and csv from models |
| get_csv_from_section | Get CSV from one section csv.data format: [ some_filename.csv... |
| get_csv_from_table | Parse metadata and csv from list of tables |
| get_datasetname | Get dataSetName from metadata. If one is not found, use... |
| get_download_path | Locate a folder to download a file to |
| getGeoNeotoma2 | get geo info from neotoma |
| get_lipd_paths | Get a list of paths to LiPD files |
| get_lipd_version | Check what version of LiPD this file is using. If none is... |
| get_matches | Use the regex match groups and the time series to compile two... |
| getMeasurementTables | Get measTables |
| get_os | Detect the OS being used |
| getPaleoDataNeotoma2 | get paleoData info from neotoma |
| getPubNeotoma2 | get pub info from neotoma |
| getQueryTable | Download the remote query table |
| get_src_or_dst | Ask user where local file/directory location is. |
| get_table | Get the target table |
| getTimestamp | Get the timestamp frmo current version of a LiPD file from... |
| get_ts_lipd | Retreieve the original datasets from the lipd R environment |
| getVersion | Get the current version of a LiPD file from it's changelog |
| get_vn | Get dataSetName from metadata. If one is not found, use... |
| hasData | Check if metadata path exists. Combine path and i to check... |
| idx_col_by_name | Get rid of "columns" layer so that the columns data is... |
| idx_col_by_num | Remove column names indexing. Set them to index by their... |
| idx_name_to_num | Switch all indexing from names to numbers. |
| idx_num_to_name | Change index-by-number to index-by-variableName |
| idx_table_by_name | Index tables in a loop |
| idx_table_by_num | Index tables in a loop |
| import_model | Index model tables |
| import_section | Change index-by-number for one section |
| index_geo | Make geo semi-flat. Remove unnecessary levels between us and... |
| initializeChangelog | Initialize a changelog for a LiPD object |
| isDirectory | Checks if a path is a directory or not a directory |
| is.lipd | Is this a LiPD object? |
| is.lipdTs | Is this a LiPD TS object? |
| is.lipdTsTibble | Is this a LiPD TS Tibble object? |
| is.lipdTsTibbleLong | Is this a LiPD TS Tibble long object? |
| is.multiLipd | Is this a multiLiPD object? |
| isNullOb | Checks if an object is null/empty |
| is.url | Check if given string is a URL or not |
| lipd2neotoma | Convert lipd to neotoma |
| lipd_read | Loads a LiPD file from local path. Unzip, read, and process... |
| lipdSummary | Print a summary of the contents of a LiPD file |
| lipdTSSummary | Print a summary of the contents of a lipd_ts or... |
| lipd_write | Saves current state of LiPD object data. Outputs to a LiPD... |
| list_files_recursive | Recursive file list for current directory and below |
| lumpTsMetaVariables | Lump metadata variables with other rows in Ts (treeTS) |
| matchCols | Extends data frames to conserve all columns when merging |
| merge_csv_columns | Merge values into each column |
| merge_csv_metadata | Using the given metadata dictionary, retrieve CSV data from... |
| merge_csv_model | Merge CSV into each model |
| merge_csv_section | Merge CSV into each section |
| merge_csv_table | Merge CSV data into each table |
| merge_interpretations | Merge the old interpretation fields into the new, combined... |
| multiLipdSummary | Print a summary of the contents of a Multi-LiPD |
| nc | Neotoma conversion metadata |
| neotoma2lipd | Convert a neotoma dataset into a LiPD object |
| newQueryTable | Download the remote query table |
| past | Query Table for LiPDverse datasets |
| printCitations | print formatted citations to stdout |
| print.lipd | short print out of single lipd |
| print.lipd_ts | short print out of lipd ts |
| print.lipd_ts_tibble | short print out of lipd ts tibble |
| printModel | Extract and print model info |
| print.multi_lipd | short print out of multi lipd |
| printSummaryData | Print summary data from Paleo/Chron measurement tables |
| process_expression | Worker function that sends through the query expressions for... |
| pullTsVariable | pull variable out of TS object |
| pushTsVariable | push variable into of TS object |
| put_base_data | Put in paleoData and chronData as the base for this dataset... |
| put_table | Put the target table |
| queryLipdverse | Query the LiPDverse |
| queryTs | Find all the time series entries that match a given search... |
| read_csv_from_file | Opens the target CSV file and creates a dictionary with one... |
| read_jsonld | Find jsonld file in the cwd (or within a 2 levels below... |
| readLipd | Read LiPD files into R workspace |
| removeEnsembles | Remove ensembles from a LiPD object |
| remove_names_from_lists | remove names from lists |
| replace_invalid_chars | Check if output datasetname has invalid characters. Replace... |
| replaceLocalZipMD5 | Replace the query zip file MD5 sums after replacing the query... |
| rm_empty_fields | Remove all NA, NULL, and empty objects from the data... |
| rm_existing_tables | Remove tables that correspond to 'whichtables' type. These... |
| splitInterpretationByScope | Split interpretation by scope |
| standardizeQCsheetValues | standardizeQCsheetValues |
| stripExtension | stripExtension |
| summary.lipd | Full summary detail of single lipd |
| summary.lipd_ts | full summary of lipd ts |
| summary.lipd_ts_tibble | full summary of lipd ts tibble |
| summary.multi_lipd | full summary of multi lipd |
| swapGeoCoordinates | An old bug caused some geo coordinates to be reversed. This... |
| tabulateTs | Create a data table from a lipd-ts-tibble object |
| tidyTs | create tidy data.frame from TS |
| tidyTsOld | create tidy data.frame from TS (old version) |
| ts2tibble | Convert a LiPD TS object into an equivalent nested tibble |
| tsPluck | Pull a single entry list object ot the top level (internal... |
| unindex_geo | Convert geo from semi-flat structure back to original GeoJSON... |
| untidyTs | create tidy data.frame from TS |
| unzipper | Unzip LiPD file to the temporary directory |
| updateChangelog | Update the changelog entry in a LiPD file with new changes |
| update_lipd_v1_1 | Update LiPD v1.0 to v1.1 - chronData entry is a list that... |
| update_lipd_v1_2 | Update LiPD v1.1 to v1.2 - Added NOAA compatible keys :... |
| update_lipd_v1_2_section | Update LiPD v1.1 to v1.2 - one section |
| update_lipd_v1_3 | Update LiPD v1.2 to v1.3 - Added 'createdBy' key - Top-level... |
| update_lipd_v1_3_keys | Update v1.2 keys to v1.3 keys: recursive |
| update_lipd_v1_3_structure | Update the structure for summary and ensemble tables |
| update_lipd_version | Use the current version number to determine where to start... |
| updateQueryTable | update the query table with most recent lipdverse version |
| validLipd | Is this a valid LiPD |
| warn_ensembles_in_paleo | Warn people about writing ageEnsembles that have been mapped... |
| write_csv_to_file | Write out each CSV file for this LiPD recorde csvs format: [... |
| writeLipd | Write LiPD data onto disk as LiPD files |
| writeVersionToRoot | write dataset version to a variable in the LiPD file |
| zipper | Zip a directory, and move up a level |
