Man pages for RoME
Multiple Checks on MEDITS Trawl Survey Data
| assTL | TL association between categories and sub-categories |
| check_0_fieldsTA | Checks the presence of 0 fields in TA |
| check_abundance | Box-plots of swept-area-standardised abundance indices |
| check_area | Check if TX files have the same area |
| check_associations_category_TL | Check correctness of TL categories |
| check_bridles_length | check of bridles length correctness |
| check_class | Check of field's class |
| check_consistencyTA_distance | Consistency check of distance in TA |
| check_consistencyTA_duration | Consistency check of hauls duration in TA |
| check_date_haul | Check of date consistency |
| check_depth | Check between start depth and end depth |
| check_dictionary | Check of the dictionary of specific fields |
| check_distance | Check of distance consistency |
| check_dm | Check of "WING_OPENING" and "VERTICAL_OPENING" fields |
| check_G1_G2 | Check of length measurements for G1 and G2 species |
| check_haul_species_TCTB | Check species of TC in TB |
| check_hauls_TATB | Check of TA hauls in TB |
| check_hauls_TATL | Check presence of TA hauls in TL |
| check_hauls_TBTA | Check of TB hauls in TA |
| check_hauls_TLTA | Check presence of TL hauls in TA |
| checkHeader | Function to check the correctness of the headers. |
| check_identical_records | Check of identical records in TX tables |
| check_individual_weightTC | Check of observed and estimated total weight in the haul |
| check_individual_weightTE | Consistency of individual weights (according to length-weight... |
| check_length | Check of length classes in TC |
| check_length_class_codeTC | Consistency check of LENGTH_CLASS |
| check_mat_stages | Consistency of maturity stages |
| check_nb_per_sexTC | Consistency check of number of individuals |
| check_nb_TE | Consistency of number of individuals sampled for weight and... |
| check_nbtotTB | Check total number of individuals in TB |
| check_nm_TB | Check of consistency in number per sex set "not mandatory" in... |
| check_no_empty_fields | Check empty fields in TA, TB, TC, TE and TL |
| check_numeric_range | Check of the values range in specific fields |
| check_position | Plot of haul positions |
| check_position_in_Med | Check of haul position in Mediterranean Sea |
| check_quadrant | Check start and end quadrant for each haul |
| check_quasiidentical_records | Function checking the presence of quasi-identical records. |
| check_raising | Comprehensive consistency checks between MEDITS 'TB' and 'TC'... |
| check_rubincode | Function checking the correctness of species MEDITS code and... |
| check_smallest_mature | Check for mature individuals below literature thresholds in... |
| check_spawning_period | Check consistency of maturity stages with respect to the... |
| check_species_TBTC | Function checking if all the target species in the catch data... |
| check_step_length_distr | The function verifies that in TC the length measures are... |
| check_stratum | Function that checks the consistency between start and end... |
| check_stratum_code | Function to check the correct codification of the strata in... |
| check_subsampling | Function to warn the user about the presence of subsamples... |
| check_swept_area | Check Swept Area Calculation and Plot |
| check_temperature | Function to check the consistency of the temperature data... |
| check_TE_TC | Function to verify the consistency between individual data... |
| check_type | Consistency check of TYPE_OF_FILE field |
| check_unique_valid_haul | Function checking that among hauls with the same code, only... |
| check_weight | Check consistency between total weight and number of... |
| check_weight_tot_nb | Function to check if, when the weight is not null, also the... |
| check_year | Consistency check of YEAR field |
| classes | Class of fields |
| create_catch | Function to create the R-sufi file capt. |
| create_haul | Function to create R-sufi file containing haul data. |
| create_length | Function to create the R-sufi file taille. |
| create_strata | Function to create R-sufi file containing strata surface... |
| DataTargetSpecies | Length and weight ranges for relevant species |
| dd.distance | Estimation of haul distance |
| error.table | Summary table of the errors |
| graphs_TA | Function for qualitative checks of shooting depth, warp... |
| GSAs | List of GFCM Geographical subareas (GSAs) |
| haul_at_sea | Check of haul position on sea area |
| headers.conversion | Headers conversion for MEDITS tables |
| list_g1_g2 | List of G1 and G2 species |
| LW | Table of the Length-Weight parameters |
| mat_stages | Table of maturity stages |
| Maturity_parameters | Maturity parameters |
| MEDITS.to.dd | Conversion of MEDITS format coordinates in decimal degrees... |
| MedSea | Shapefile of Mediterranean and Black Sea area |
| printError | Management of the error in logfile. |
| printError_cc | Management of the error in logfile. |
| RoME | Multiple Checks on MEDITS Trawl Survey Data |
| RoMEBScc | Continuous Quality Checks on Black Sea trawl Survey Data |
| RoMEcc | Continuous Quality Checks on MEDITS Trawl Survey Data |
| Rsufi_files | Function to concatenate the R-sufi files of the different... |
| run_RoME_app | Run the RoME Shiny application |
| scheme_individual_data | Summary of the individual data collected by species |
| stratification_scheme | stratification_scheme |
| stratification_scheme_rapana | stratification_scheme_rapana |
| TA | TA |
| TB | TB |
| TC | TC |
| TE | TE |
| templateTA | Template haul data table (TA). |
| templateTB | Template catch data table (TB). |
| templateTC | Template biological data table (TC). |
| templateTE | Template individual data table (TE). |
| templateTL | TL table template |
| time | allowed values for SHOOTING_TIME and HAULING_TIME |
| TL | TL |
| TM_list | TM list |
