Function reference • lipdR

All functions
`addTSidToLipd()`	Add TSid where missing in a LiPD file
`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
`build_structure()`	Before you place a table, you must have the structure leading up to the location or you'll get errors. Build the structure
`cbind.NA`	handle NAs in cbind
`cconv`	Neotoma chron conversion metadata
`checkZipMd5()`	Compare the MD5 sums for the queryTable zip between locally stored and current remote
`collapseTs()`	Collapse time series into LiPD dataset form
`collapse_block()`	Collapses blocks: calibration, physicalSample, hasResolution, These follow the regex format of "<key1>_<key2>" match[[1]][[1]] = full key with underscore and index (ex. "physicalSample_tableName") match[[1]][[2]] = first key (ex. "physicalSample") match[[1]][[3]] = second key (ex. "tableName")
`collapse_block_indexed()`	Collapses blocks: funding, publication calibration, interpretation
`collapse_column()`	Collapse time series column. Compile column entries and place new column in table.
`collapse_table()`	Collapse time series section; paleo or chron
`collapse_table_root()`	Collapse time series table root. All keys listed below are known table root keys.
`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
`createTSid()`	Create a random TSid
`duplicateTable()`	Duplicate a table in a LiPD file
`extractTs()`	Extract time series from LiPD data
`filterTs()`	Find all the time series objects that match a given search expression, and return a new time series with the matching objects Valid operators : ==, =, <=, >=, <, >
`formatCitation()`	Format citation from 'pub' portion of LiPD file
`getChangelog()`	Get one instance from a LiPD changelog
`getChronDataNeotoma2()`	get chronData info from neotoma
`getGeoNeotoma2()`	get geo info from neotoma
`getMeasurementTables()`	Get measTables
`getPaleoDataNeotoma2()`	get paleoData info from neotoma
`getPubNeotoma2()`	get pub info from neotoma
`getQueryTable()`	Download the remote query table
`getTimestamp()`	Get the timestamp frmo current version of a LiPD file from it's changelog
`getVersion()`	Get the current version of a LiPD file from it's changelog
`get_table()`	Get the target table
`get_ts_lipd()`	Retreieve the original datasets from the lipd R environment
`initializeChangelog()`	Initialize a changelog for a LiPD object
`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?
`lipd2neotoma()`	Convert lipd to neotoma
`lipdSummary()`	Print a summary of the contents of a LiPD file
`lipdTSSummary()`	Print a summary of the contents of a lipd_ts or lipd_ts_tibble
`lumpTsMetaVariables()`	Lump metadata variables with other rows in Ts (treeTS)
`matchCols()`	Extends data frames to conserve all columns when merging
`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
`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
`print(<multi_lipd>)`	short print out of multi lipd
`printCitations()`	print formatted citations to stdout
`printModel()`	Extract and print model info
`printSummaryData()`	Print summary data from Paleo/Chron measurement tables
`process_expression()`	Worker function that sends through the query expressions for finding matching entries in the time series
`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 using the oroginal dataset data.
`put_table()`	Put the target table
`queryLipdverse()`	Query the LiPDverse
`queryTs()`	Find all the time series entries that match a given search expression, and return vector of the indices that match. indices = queryTs(ts, "archiveType == marine sediment") Valid operators : ==, =, <=, >=, <, >
`readLipd()`	Read LiPD files into R workspace
`removeEnsembles()`	Remove ensembles from a LiPD object
`remove_names_from_lists()`	remove names from lists
`replaceLocalZipMD5()`	Replace the query zip file MD5 sums after replacing the query table
`rm_existing_tables()`	Remove tables that correspond to 'whichtables' type. These tables will be collapsed next and need a clean slate.
`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
`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 use)
`untidyTs()`	create tidy data.frame from TS
`updateChangelog()`	Update the changelog entry in a LiPD file with new changes
`updateQueryTable()`	update the query table with most recent lipdverse version
`validLipd()`	Is this a valid LiPD
`writeVersionToRoot()`	write dataset version to a variable in the LiPD file

Reference

All functions