Man pages for vflo/PSIsapfluxnetQC1
Quality check for PSI project
| create_dic | Variable dictionaries for metadata |
| df_accepted_to_lvl1_psi | Save the fixed datasets (metadata and data) in the LVL1... |
| df_copy_templates_psi | Save the Rmd templates and the running scripts to their... |
| 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_read_psiData | Load psiData |
| df_received_to_accepted_psi | Move from received to accepted data folders |
| df_report_folder_creation | Reports folders creation |
| df_reset_data_status_psi | Reset the data folder and status file for the si_code given. |
| df_set_status_psi | Set the status file info |
| df_start_status_psi | Initialise an empty status file |
| df_whos_ready_to | Who is ready the desired level? |
| dl_data_col_classes | Check data columns classes and set to numeric if needed |
| dl_get_si_code_psi | Get the site code and the names of the data files |
| dl_metadata | Loading metadata from xls/xlsx |
| hello | Hello, World! |
| log_psi_action | Logging handler action |
| log_psi_format | Logs formatter |
| log_psi_setup | Setup handler |
| lvl1_process | QC1 function |
| lvl2_process | QC2 function, cleaning a little |
| plot-psiData-missing-method | plot psiData method |
| psi_data2csv | psi_data2csv function |
| psiData-class | An S4 class for psi data |
| psi_data_constructor | Create a PsiData object from results of Quality Checks |
| psi_get_generics | psiData custom get generics |
| psi_get_methods | psiData get methods |
| psi_replacement | Replacement methods |
| psi_replacement_generics | Replacement generics |
| psi_tidyfier | PSI tidyfier |
| psi_validity | Validity method for psiData class |
| qc_as_timestamp | Convert known bad formats to correct timestamp format and set... |
| qc_check_coordinates | Site coordinates checking |
| 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_ext_radiation | Solar time conversion |
| qc_factor_values | Metadata factor variables check |
| qc_fix_latlong_errors | Fixing sign errors in coordinates |
| 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_timezone_coord | Timezones from coordinates |
| 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_measured_sfn | Correct measured_sfn values |
| qc_plant_dics | Dictionary creation for plant_md variables |
| qc_pl_treatments | Check plant treatments for misspelling and concordance errors |
| qc_psi_dics | Dictionary creation for psi_data_md variables |
| qc_psi_nas | Checking for NAs in the psi |
| qc_psi_N_nas | Checking for NAs in the psi N |
| qc_psi_SE_nas | Checking for NAs in the psi SE |
| qc_set_timezone | Set the timezone of the timestamp |
| qc_simplify_questions | Function to simplify questionnaire section |
| qc_site_dics | Dictionary creation for site_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_start_process_psi | Start QC process |
| qc_timestamp_nas | Checking for NAs in the timestamp |
| read_psi_data | Read psi_data from disk |
| remove_dupcols | Remove columns with duplicate names |
| rep_psi_render | Render the report |
| show-psiData-method | Show method for psiData |
| sub-psiData-numeric-ANY-missing-method | Sub-setting operation |
| write_psi_data | Function to save the psi_data created |
