Man pages for sapfluxnet/sapfluxnetQC1
Package with functions related to sapfluxnet project data
| as_sfn_data | SfnData to sfn_data conversion |
| create_dic | Variable dictionaries for metadata |
| df_accepted_to_lvl1 | Save the fixed datasets (metadata and data) in the LVL1... |
| df_copy_templates | Save the Rmd templates and the running scripts to their... |
| df_flag_to_lvl2_app | Interactively select the data sets ready to move to level 2 |
| df_folder_structure | Initial project folder structure |
| df_get_data_folders | Get the folders to feed 'qc_start_process' |
| df_get_status | Get the status file info |
| df_lvl1_to_lvl2 | Function to pass from level 1 to level 2 |
| df_lvl2_folder_structure | Build the folder structure of level 2 |
| df_read_SfnData | Load SfnData |
| df_received_to_accepted | Move from received to accepted data folders |
| df_rem_to_units | Function to pass from out_rem to out_units |
| df_report_folder_creation | Reports folders creation |
| df_reset_data_status | Reset the data folder and status file for the si_code given. |
| df_set_status | Set the status file info |
| df_start_status | Initialise an empty status file |
| df_warn_to_rem | Function to pass from out_warn to out_rem |
| df_whos_ready_to | Who is ready the desired level? |
| df_write_SfnData | Write SfnData |
| dl_data | Loading data from xls/xlsx ann csv files |
| dl_data_col_classes | Check data columns classes and set to numeric if needed |
| dl_dec_char_detect | Decimal character detection |
| dl_get_si_code | Get the site code and the names of the data files (metadata,... |
| dl_metadata | Loading metadata from xls/xlsx |
| dl_na_char_generator | Create a characters vector for NA values |
| hello | Hello, World! |
| log_sapfluxnet_action | Logging handler action |
| log_sapfluxnet_format | Logs formatter |
| log_sapfluxnet_setup | Setup handler |
| lvl3_process | QC3 function, cleaning a little |
| out_app | outliers_app function |
| out_confirmation_app | outlier confirmation app |
| plot-SfnData-missing-method | plot SfnData method |
| qc_as_timestamp | Convert known bad formats to correct TIMESTAMP format and set... |
| qc_check_coordinates | Site coordinates checking |
| qc_cm_cm_h | Unit conversion |
| qc_coordinates | Commodity function to check site coordinates |
| qc_coord_sign_test | Coordinates sign test |
| qc_data_results_table | Main function to resume Data QC in one data frame |
| qc_download_maps | Download maps for countries included in the database |
| qc_email_check | Check if provided email directions are correct |
| qc_env_dics | Dictionary creation for environmental_md variables |
| qc_env_ranges | Check ranges for environmental variables |
| qc_env_vars_presence | Check for environmental variables presence |
| qc_ext_radiation | Solar time conversion |
| qc_factor_values | Metadata factor variables check |
| qc_fix_latlong_errors | Fixing sign errors in coordinates |
| qc_fix_timestamp | Fix TIMESTAMP formats |
| qc_get_biome | Get the biome, temperature and precipitation of a site |
| qc_get_biomes_spdf | Make a SpatialPolygonsDataFrame object of the biomes |
| qc_get_sapw_md | Helper function for unit conversion |
| qc_get_timestep | Helper function to get metadata timestep (environmental and... |
| qc_get_timezone | Timezones dictionary |
| qc_is_timestamp | TimeStamp format check |
| qc_md_cols | Metadata columns check |
| qc_md_results_table | Main function to resume Metadata QC in one data frame |
| qc_mind_the_gap | Gaps info |
| qc_mind_the_gap_eff | Gaps info |
| qc_out_hampel_filter | Hampel filter |
| qc_outliers_process | Outliers process |
| qc_outliers_subs | Outliers substitution |
| qc_out_of_range | Checking for out of ranges values and flagging them |
| qc_out_remove | Outliers QC |
| qc_plant_dics | Dictionary creation for plant_md variables |
| qc_pl_treatments | Check plant treatments for misspelling and concordance errors |
| qc_rad_conversion | Radiation units transformation |
| qc_range_dic | Ranges dictionary |
| qc_rh | Calculation of rh from vpd and ta |
| qc_sapf_ranges | Check ranges for sapflow |
| qc_sapw_area_calculator | Sapwood area calculator |
| qc_sapw_conversion | Sap flow units transformation |
| qc_set_timezone | Set the timezone of the TIMESTAMP |
| qc_site_dics | Dictionary creation for site_md variables |
| qc_soil_texture | Soil texture classification |
| qc_species_dics | Dictionary creation for species_md variables |
| qc_species_names | Wrapper for species names check |
| qc_species_names_fix | Verify provided species names (spelling and correctness) |
| qc_species_names_info | Info of species names spelling |
| qc_species_verification | Check if sp_name and sp_ntrees coincides with plants... |
| qc_stand_dics | Dictionary creation for stand_md variables |
| qc_start_process | Start QC process |
| qc_swc_check | Check for correct values of SWC |
| qc_swc_fix | Fix the swc values (if possible) |
| qc_time_interval | Getting the t_0 and t_f for trees or environmental data |
| qc_timestamp_concordance | Check concordance between sapflow TIMESTAMP and env TIMESTAMP |
| qc_timestamp_errors | TimeStamp errors localization |
| qc_timestamp_nas | Checking for NAs in the TIMESTAMP |
| qc_transf_list | Transformations list |
| qc_transformation_vars | Presence of variables needed for transformations summary |
| qc_units_process | Units process |
| qc_vpd | Calculation of VPD from rh and ta |
| remove_dupcols | Remove columns with duplicate names |
| rep_sfn_render | Render the report |
| sfn_data2csv | sfn_data2csv function |
| SfnData-class | An S4 class for sapfluxnet data |
| sfn_data_constructor | Create a SfnData object from results of Quality Checks |
| sfn_get_generics | SfnData custom get generics |
| sfn_get_methods | SfnData get methods |
| sfn_replacement | Replacement methods |
| sfn_replacement_generics | Replacement generics |
| sfn_validity | Validity method for SfnData class |
| show-SfnData-method | Show method for SfnData |
| sm_solarTIMESTAMP_adder | solarTIMESTAMP adder |
| sm_status_updater | Status updater to server management |
| sub-SfnData-numeric-ANY-missing-method | Sub-setting operation |
| theme_sfn | ggplot2 theme for SAPFLUXNET plots |
| vis_biome | Plotting a diagram of biomes |
| vis_environmental_responses | Environmental responses plot |
| vis_gap_lines | TIMESTAMP with gaps visualization |
| vis_gaps_calendar | Gaps density visualization |
| vis_location_biome | Plotting a diagram of biomes with sites as dots |
| vis_plot_the_gap | Plotting an histogram for gaps intervals/gaps coverage |
| write_sfn_data | Function to save the sfn_data created |
