Man pages for weecology/MATSS-pipeline
Macroecological Analyses of Time Series Structure
| analysis_wrapper | Create a function that replicates an analysis for all time... |
| append_data_citations | Generate a vector of citations. |
| append_retriever_citation | Append citation info to a formatted dataset |
| build_analyses_plan | Generate a Drake Plan for Analyses |
| build_bbs_datasets_plan | Generate a Drake Plan for BBS Datasets |
| build_biotime_datasets_plan | Generate a Drake Plan for Biotime Datasets |
| build_datasets_plan | Generate a Drake Plan for Datasets |
| build_gpdd_datasets_plan | Generate a Drake Plan for GPDD Datasets |
| build_references_plan | Generate a Drake Plan for dataset references |
| build_retriever_datasets_plan | Generate a Drake Plan for retriever datasets |
| check_data_format | Check data format |
| check_default_data_path | Check if a default data path is set |
| collect_analyses | Collect Analyses Together into a Tibble |
| combine_bbs_subspecies | Combine subspecies into their common species |
| correct_biotime_dataset | Correct and clean specific datasets |
| create_MATSS_compendium | Create a research compendium for MATSS |
| dragons | dragons dataset |
| filter_bbs_species | Filter poorly sampled BBS species |
| filter_bbs_ts | Filter BBS to specified time series period and number of... |
| get_bbs_route_region_data | Get cleaned BBS data |
| get_biotime_data | Get a cleaned BioTime dataset |
| get_biotime_dataset_ids | Return BioTime dataset ids for individual loading |
| get_cowley_lizards | Read in the cowley lizard community data from a txt file... |
| get_cowley_snakes | Read in the cowley snake community data from a txt file... |
| get_default_data_path | What is the default data path? |
| get_effort_from_data | extract the effort from a formatted data structure |
| get_gpdd_data | Create GPDD population time-series data |
| get_jornada_data | get Jornada rodent data |
| get_karoo_data | get Karoo ungulate data Import and clean Karoo abundance from... |
| get_kruger_data | get Kruger National Park ungulate data Import and clean... |
| get_maizuru_data | get the maizuru community data |
| get_mtquad_data | get Montana plant quad time-series data |
| get_portal_rodents | get portal rodent data Import Portal rodent data using... |
| get_sdl_data | Create Sonoran desert lab time-series data |
| get_sgs_data | get Shortgrass Steppe rodent data |
| get_times_from_data | extract the times from a formatted data structure |
| has_integer_times | Check if a dataset has integer times |
| has_missing_samples | Check for missing samples |
| install_retriever_data | Download data from the data retriever |
| interpolate_missing_samples | Impute missing samples using linear interpolation |
| interpolate_obs | Interpolate observations |
| invoke | Invoke an analysis on a dataset |
| is_equitimed | Check that the times of a dataset are evenly sampled |
| make_equitimed | Insert rows if necessary so that time series are evenly... |
| make_integer_times | Add a time variable with integer values for evenly sampled... |
| MATSS | Macroecological Analayses of Time Series Structure |
| normalize_obs | Normalize observations, effort, or times |
| pipe | Pipe operator |
| prepare_bbs_ts_data | Prepare BBS population time-series data |
| prepare_datasets | Prepare datasets for usage |
| print.matssdata | Print a time series dataset |
| print.matsssummary | Print a time series summary |
| process_bbs_route_region_data | Process the BBS data for an individual route and region |
| process_biotime_dataset | Process an individual BioTime dataset |
| richness | Count non-0 entries |
| summarize_df | Compute summaries and autocorrelation for each variable |
| summarize_vec | Summarize a univariate vector |
| summary.matssdata | Summarize a time series dataset |
| temp_autocor | Interpolate observations |
| to_numeric_vector | Extract a numeric vector |
| ts_summary | Summarize a time series dataset |
| use_default_data_path | Manage the default path for downloading MATSS Data into |
