| barplot-report_annual-method | barplot method for object report_annual-class |
| calcule | Generic method for calculations |
| calcule-report_ge_weight-method | Calcule method for report_ge_weight |
| calcule-report_mig_char-method | Computes data to a standard format for the summary and plot... |
| calcule-report_mig_env-method | Calculations for migration in the class report_mig_env-class |
| calcule-report_mig_interannual-method | calcule method for report_mig_interannual |
| calcule-report_mig-method | Transforms migration per period to daily migrations, and... |
| calcule-report_mig_mult-method | #' Transforms migration per period to daily migrations, and... |
| calcule-report_sample_char-method | Calculation for report_sample_char |
| calcule-report_sea_age-method | Split data according to the limits set in the limit1hm, and... |
| calcule-report_silver_eel-method | Calculate individual silver eel parameters. |
| calcule-report_species-method | calcule method for report_species |
| charge | Generic method to load referentials |
| charge_complement | Generic method to load additional data |
| charge_complement-ref_parqual-method | Loads an additional dataset this method is loaded to obtain... |
| charge-ref_choice-method | Loading method for Refchoice referential objects |
| charge-ref_coe-method | loads the coefficients for the period defined in class |
| charge-ref_dc-method | Method to load the counting devices of the control station |
| charge-ref_df-method | Loading method for DF referential objects |
| charge-ref_env-method | Loading method for ref_env referential object |
| charge-ref_list-method | Loading method for ref_list referential objects |
| charge-ref_par-method | Loading method for ref_par referential objects |
| charge-ref_parqual-method | Loading method for Reparqual referential objects |
| charge-ref_parquan-method | Loading method for Reparquan referential objects |
| charge-ref_stage-method | Loading method for ref_stage referential objects |
| charge-ref_taxa-method | Loading method for ref_taxa referential objects |
| charge-ref_textbox-method | Loading method for ref_textbox referential objects |
| charge-ref_year-method | Loading method for ref_year referential objects |
| charge-report_annual-method | charge method for report_annual class |
| charge-report_dc-method | charge method for report_dc |
| charge-report_df-method | charge method for report_df |
| charge-report_env-method | charge method for report_env class |
| charge-report_mig_char-method | charge method for report_mig_char |
| charge-report_mig_env-method | charge method for report_mig_env class |
| charge-report_mig_interannual-method | loading method for report_mig_interannual class |
| charge-report_mig-method | Loads additional data on migration control operations, df... |
| charge-report_mig_mult-method | charge method for report_mig_mult |
| charge-report_ope-method | charge method for report_ope |
| charge-report_sample_char-method | charge method for report_sample_char class |
| charge-report_sea_age-method | Loads data and check that all choices in the graphical... |
| charge-report_silver_eel-method | charge method for report_silver_eel class |
| charge-report_species-method | charge method for report_species |
| charge_with_filter | Generic method to load referentials, with filters from the... |
| charge_with_filter-ref_par-method | Loading method for 'ref_par referential' objects searching... |
| charge_with_filter-ref_parqual-method | Loading method for Reparqual referential objects searching... |
| charge_with_filter-ref_parquan-method | Loading method for Reparquan referential objects searching... |
| charge_with_filter-ref_stage-method | Loading method for ref_stage referential objects searching... |
| charge_with_filter-ref_taxa-method | Loading method for ref_taxa referential objects searching... |
| choice_c | Generic method for manual choice using the command line |
| choice_c-ref_choice-method | Choice_c method for ref_choice referential objects |
| choice_c-ref_dc-method | Command line interface to select a counting device |
| choice_c-ref_df-method | Command line interface to choose a fishway |
| choice_c-ref_env-method | Command line interface to select a monitoring station |
| choice_c-ref_horodate-method | Choice_c method for ref_horodate |
| choice_c-ref_list-method | Choice_c method for ref_list referential objects |
| choice_c-ref_par-method | Command line interface to select a parameter |
| choice_c-ref_stage-method | choice_c method for ref_stage |
| choice_c-ref_taxa-method | choice_c method for ref_taxa |
| choice_c-ref_textbox-method | Choice_c method for ref_textbox referential objects |
| choice_c-ref_timestep_daily-method | choice_c method for class ref_timestep_daily |
| choice_c-ref_year-method | choice_c method for ref_year referential from the command... |
| choice_c-report_annual-method | command line interface for report_annual-class |
| choice_c-report_dc-method | command line interface for report_dc class |
| choice_c-report_df-method | command line interface for report_df class |
| choice_c-report_env-method | command line interface for report_env class |
| choice_c-report_ge_weight-method | command line interface for report_ge_weight-class |
| choice_c-report_mig_char-method | command line interface for report_mig_char class |
| choice_c-report_mig_env-method | command line interface for report_env class |
| choice_c-report_mig_interannual-method | command line interface for report_mig_interannual class |
| choice_c-report_mig-method | command line interface for report_mig class |
| choice_c-report_mig_mult-method | command line used to build report_mig_mult class |
| choice_c-report_sample_char-method | command line interface for report_sample_char class |
| choice_c-report_sea_age-method | command line interface for report_sea_age class |
| choice_c-report_silver_eel-method | command line interface for report_silver_eel class |
| choice_c-report_species-method | command line interface for report_species-class |
| coef_durif | Silvering index coefficients from Caroline Durif (2009) to... |
| colortable | Builds a table with colors to merge with a dataframe for... |
| connect-report_annual-method | connect method for report_annual class this method performs... |
| connect-report_dc-method | connect method for report_dc |
| connect-report_df-method | connect method for report_df |
| connect-report_env-method | connect method for report_env class |
| connect-report_ge_weight-method | connect method for report_Poids_moyen |
| connect-report_mig_char-method | connect method for report_mig_char |
| connect-report_mig_env-method | connect method for report_mig_env class |
| connect-report_mig_interannual-method | connect method for report_mig_interannual |
| connect-report_mig-method | connect method for report_mig |
| connect-report_mig_mult-method | connect method for report_mig_mult |
| connect-report_ope-method | connect method for report_ope |
| connect-report_sample_char-method | connect method for report_sample_char |
| connect-report_sea_age-method | connect method for report_sea_age |
| connect-report_silver_eel-method | connect method for report_silver_eel |
| connect-report_species-method | connect method for report_species |
| end_date | Generic method for getting the final date |
| end_date-ref_timestep-method | Gets the final horodate for an object of class... |
| envir_stacomi | Environment where most objects from the package are stored... |
| fn_connect_report_mig_interannual | Get table content for table t_bilanmigrationjournalier_bjo in... |
| fun_aggreg_for_plot | Calculates a data.frame where all components within the list... |
| funbarchart1DF | Internal use barchart for report_df class from the graphical... |
| funbarchartDF | Internal use, function used in the graphical interface to... |
| funboxDF | Internal use, rectangles to describe the DF work for... |
| fun_char_spe | function used to remove special non utf8 character which... |
| funchartDF | Function to plot calendar like graph, internal use |
| fun_date_extraction | This function extracts temporal characteristics from a... |
| fungraph | Function for report_mig graphs including numbers DF DC... |
| fungraph_glasseel | Graph function for glass eel migration. Differs from fungraph... |
| funout | this function displays text and will be used to convey... |
| funplotreport_silver_eel | funplotreport_silver_eel |
| fun_report_mig_interannual | statistics per time period |
| fun_report_mig_mult | Calculate daily migration by simple repartition |
| fun_report_mig_mult_overlaps | Function to calculate daily migration using overlaps... |
| fun_schema | Creates a list of available schemas in the db |
| fun_stage_durif | Function to calculate the stages from Durif |
| funstat | Function to calculate statistics per month |
| funtable | function to print and save statistics in .csv and .html... |
| funtableDF | Table output for report_df class |
| fun_table_per_dis | functions called in DF and DC |
| fun_weight_conversion | returns a table where weights and number are calculated from... |
| fun_write_monthly | This writes monthly data in t_reportmensuel_mens table |
| get_org | this function gets the name of the stucture as it is set in... |
| get_schema | this function gets the schema from envir stacomi and throws... |
| getvalue | Generic method getvalue |
| get_year | Generic method to get the years |
| get_year-ref_timestep-method | Gets the year or a vector of years corresponding to the... |
| graphdate | function used for some lattice graphs with dates |
| load_stacomi | Internal function, tests the connection and if it works loads... |
| model | Generic for prediction |
| model-report_ge_weight-method | model method for report_ge_weight' this method uses samples... |
| plot-report_annual-missing-method | Plot method for report_annual |
| plot-report_dc-missing-method | Different plots for report_dc |
| plot-report_df-missing-method | Different plots for report_df |
| plot-report_env-missing-method | Plot method for report_env |
| plot-report_ge_weight-missing-method | Plot method for report_ge_weight' |
| plot-report_mig-ANY-method | Plots of various type for report_mig. |
| plot-report_mig_char-missing-method | plot method for report_mig_char |
| plot-report_mig_env-missing-method | Plot method for report_mig_env |
| plot-report_mig_interannual-missing-method | Plot method for report_mig_interannual |
| plot-report_mig_mult-missing-method | Plots of various type for report_mig_mult |
| plot-report_sample_char-missing-method | Plots of various type for reportcarlot |
| plot-report_sea_age-missing-method | Plots of various type for report_sea_age |
| plot-report_silver_eel-missing-method | Plots of various type for report_silver_eel |
| plot-report_species-missing-method | Plot method for report_species |
| print-report_dc-method | Method to print the command line of the object. |
| print-report_df-method | Method to print the command line of the object |
| print-report_mig-method | Method to print the command line of the object |
| print-report_mig_mult-method | Method to print the command line of the object |
| print-report_sample_char-method | Method to print the command line of the object |
| print-report_sea_age-method | Method to print the command line of the object |
| print-report_silver_eel-method | Method to print the command line of the object |
| r_ann | Annual migration of yellow and silver eel for three fishways... |
| r_ann_adour | Annual migration of salmon in the Adour and tributaries |
| r_dc | Counting Device (DC) operation from 2000 to 2015 at the Arzal... |
| r_df | Overview of the fishway operation at Arzal in (Vilaine... |
| ref_choice-class | Class 'ref_choice' |
| ref_coe-class | Class 'ref_coe' |
| ref_dc-class | Class 'ref_dc' |
| ref_df-class | Class 'ref_df' |
| ref_env-class | Class 'ref_env' |
| ref_horodate-class | Class ref_horodate |
| ref_list-class | Class 'ref_list' |
| ref_par-class | Class 'ref_par' |
| ref_parqual-class | Class 'ref_parqual' |
| ref_parquan-class | Class 'ref_parquan' |
| ref_stage-class | Class 'ref_stage' |
| ref_taxa-class | Class 'ref_taxa' |
| ref_textbox-class | ref_textbox referencial class |
| ref_timestepChar-class | Class "ref_timestepChar" |
| ref_timestep-class | Class "ref_timestep" |
| ref_timestep_daily-class | Class 'ref_timestep_daily' |
| ref_year-class | Year reference class |
| r_env | An object of class report_env with data loaded |
| report_annual-class | Class "report_annual" |
| report_dc-class | Class "report_dc" report du fonctionnement du dispositif de... |
| report_df-class | Report on fishway operation |
| report_env-class | class report_env simple output of one or several... |
| report_ge_weight-class | Trend of wet weight in glass eel |
| report_mig_char-class | Migration report along with quantitative and qualitative... |
| report_mig-class | Migration report for one DC, one species and one stage |
| report_mig_env-class | Class "report_mig_env" |
| report_mig_interannual-class | Class "report_mig_interannual" |
| report_mig_mult-class | Migration reports for multiple DC / species / stages |
| report_ope-class | Report on operations |
| report_sample_char-class | Class 'report_sample_char' |
| report_sea_age-class | Class "report_sea_age" |
| report_silver_eel-class | Class "report_silver_eel" |
| report_species-class | Counts of number per taxa/stages |
| r_gew | Wet weight of glass eel from the trapping ladder (Arzal,... |
| r_mig | Video counting of Marine lamprey (Petromyzon marinus) in 2012... |
| r_mig_char | Qualitative and quantitative parameters describing Salmon... |
| r_mig_dc | Counting device operation for the video recording (Arzal dam,... |
| r_mig_df | Fishway operation for the vertical slot fishway (Arzal dam,... |
| r_mig_env | An object of class report_mig_env with data loaded |
| r_mig_interannual | Daily glass eel and elver migration from 1984 to 2016 in the... |
| r_mig_interannual_vichy | Seasonality of salmon migration at the Vichy counting station... |
| r_mig_mult | Anguilla migration at the Arzal station... |
| r_mig_mult_dc | Counting device operation for three different counting device... |
| r_mig_mult_df | Fishway operation at the Arzal Dam (Vilaine France) (3... |
| r_mig_mult_ope | Counting operations for three different counting device in... |
| r_mig_ope | An object of class report_ope-class with data loaded |
| r_sample_char | Size of yellow and glass eel at the Arzal dam (Vilaine,... |
| r_seaa | An object of class report_sea_age with data loaded |
| r_silver | Silver eel migration in the Somme |
| setasqualitative | Generic method to transform quantitative par into a... |
| setasqualitative-report_mig_char-method | Turns a continuous parameter into discrete values |
| split_per_day | Create a dataframe suitable for charts per 24h and day |
| stacomi | stacomi Main launcher for program stacomi |
| summary-report_dc-method | summary for report_dc, write csv and html output, and prints... |
| summary-report_df-method | summary for report_df, write csv and html output, and prints... |
| summary-report_mig_char-method | summary for report_mig_char |
| summary-report_mig_interannual-method | summary for report_mig_interannual provides summary... |
| summary-report_mig-method | summary for report_mig calls functions funstat and funtable... |
| summary-report_mig_mult-method | summary for report_mig_mult calls functions funstat and... |
| summary-report_sample_char-method | summary for report_sample_char |
| summary-report_sea_age-method | summary for report_sea_age |
| summary-report_silver_eel-method | summary for report_silver_eel |
| summary-report_species-method | summary for report_species |
| supprime | Generic method to delete entires from the database |
| supprime-ref_coe-method | supprime method for 'ref_coe' class |
| supprime-report_mig_interannual-method | supprime method for report_mig_interannual class, deletes... |
| supprime-report_sea_age-method | supprime method for report_mig_interannual class |
| validity_ref_horodate | Validity check for ref_horodate |
| validity_year | Validity check for ref_year |
| vector_to_listsql | Transforms a vector into a string called within an sql... |
| write_database | Generic method write_database |
| write_database-report_ge_weight-method | Method to write data to the stacomi database for... |
| write_database-report_mig-method | Command line method to write the daily and monthly counts to... |
| write_database-report_sea_age-method | Command line method to write the characteristic "sea age"... |
| xtable-report_annual-method | xtable function for report_annual-class create an xtable... |
| xtable-report_mig_char-method | xtable function for report_mig_char-class create an xtable... |
