For analysing fisheries VMS (Vessel Monitoring System) data

ac | shortcut for as.character |

activityTacsat | Define activity of fishing vessel based on speed profile... |

activityTacsatAnalyse | Analyse speed profiles to define number of peaks. |

addWidth | Add width of gear to interpolated gear track |

af | shortcut for as.factor |

an | shortcut for as.numeric |

anf | shortcut for as.numeric(as.character()) |

bearing | Compute bearing between two points on a sphere (approximation... |

bindAllMergedTables | bind all individual merged tables into a big one |

building_tab_pca | Useful functions for the multivariate analysis of logbooks... |

calc_mcp | Computing the Minimum Convex Polygon (MCP) |

calculateCI | Calculate the CI between two succeeding VMS datapoints |

calculateSpeed | Calculate the speed of the vessel at each ping |

callPeakValue | Internal function to retreive information on number of peaks |

clipObs2Tacsat | Find tacsat records close to observation data records |

c.listquote | Produce quoted list for use within data.table |

compareToOrdination | Compare the metiers found with the classification from... |

correspLevel7to5 | correspLevel7to5 |

correspMixedMetier | correspMixedMetier |

countPings | Count the number of VMS pings in a selection |

createGrid | create a Grid (GridTopology: sp) depending on x and y limits... |

CSquare | Calculate the CSquare notation from the GPS locations |

CSquare2LonLat | Calculate the GPS notation from the CSquare notation |

degree2Km | Compute distance from degrees into kilometers |

destFromBearing | Find destination from point of origin given bearing and... |

diffInter | Calculate distance between interpolation and reference set |

distance | Compute distance between two points on a sphere... |

distanceInterpolation | Calculate the distance (in km) from an interpolated dataset |

distanceTacsat | Calculate the distance (in km) from a Tacsat dataset |

effort | effort |

eflalo | Vessel logbook dataset |

eflalo2Pings | Merge eflalo to tacsat pings |

eflalo2relational | Turn eflalo dataset into relational format |

eflaloHaul2Tacsat | Convert eflalo (haul by haul / log-event) to tacsat format |

equalDistance | Interpolated points at equal distance |

estimatePropFishing | Estimate the proportion fishing per fishing trip |

euharbours | euharbours |

europa | Polygon dataset of Europe |

extractTableMainSpecies | Finding Metiers from a reduced EFLALO dataset, step 1 :... |

filterTacsat | Filter out duplicated or out-of-range Tacsat datapoints |

findEndTacsat | Finding the succeeding Tacsat datapoint based on an interval... |

formatEflalo | Format Eflalo data to ensure that all columns are in right... |

formatTacsat | Format tacsat data to ensure that all columns are in right... |

getEflaloMetierLevel7 | Finding Metiers from a full EFLALO dataset, general function... |

getMetierClusters | Finding metiers from a reduced EFLALO dataset, step 3:... |

getndp | Get Number of Decimal Places |

getTableAfterPCA | Finding Metiers from a reduced EFLALO dataset, step 2:... |

harbours | Dataframe containing > 3500 harbours primarily Europe |

ICESarea | Get ICES area from coordinates |

ICESareas | SpatialPolygons dataset of ICESareas |

ICESrectangle | Get ICES rectangle from coordinates |

ICESrectangle2LonLat | Convert the ICES rectangle to coordinates |

indicators | Calculate the DCF indicators |

interCubicHermiteSpline | Interpolate using Cubic Hermite Spline |

interpolateTacsat | Find interpolated points between two succeeding GPS... |

interpolation2Tacsat | Convert the output (a list) from interpolateTacsat to tacsat |

interStraightLine | Interpolate using Straight line |

intervalTacsat | Return the interval time between pings |

kgeur | Return kg and euro column index of eflalo dataset |

km2Degree | Compute distance from kilometers into degrees |

labellingHauls | Labelling fishing operations |

landingsMaps2GIFanim | generate some gif animations from the landings maps |

lonLat2SpatialPolygons | Creates a 'SpatialPolygons' object from longitude-latitude... |

lonLatRatio | Calculate the ratio between 1 degree in longitude versus 1... |

mapGrid | function to map grids |

maxRangeCI | Computation of outer range of vessel trajectory between two... |

mcp.area | Hidden function to calculate Minimum Convex Polygon |

mergeEflalo2Pings | Coupling of VMS and logbooks data including landings... |

mergeEflalo2Tacsat | mergeEflalo2Tacsat |

N1p0 | 2-dimensional Gaussian distribution with two-peak possibility |

outsideMaxRange | compute fraction of Confidence Interval that is located... |

pings2EffortMaps | generate some fishing effort maps from the merged output... |

pings2Fishframe | convert the merged (VMS + logbooks) data.frame to comply with... |

pings2LandingsMaps | generate some landings maps from the merged output table |

plot_mcp | Plot the Minimum Convex Polygon |

plotTools | Plot eflalo or tacsat files |

plotTreeMap | Plot a squarified treemap of landing proportion per cell. |

pointInHarbour | Find points in harbour within specified range |

pointOnLand | Find points on land given a set of coordinates |

poolEflaloSpecies | merge species in eflalo to reduce the size of data according... |

predictMetier | Finding metiers for a new reduced EFLALO dataset from a... |

raiseTacsat | Raise the effort in tacsat to the effort available in eflalo. |

rbindEflalo | Row bind two eflalo sets together |

rbindTacsat | Row bind two tacsat sets together |

readEflalo | Read Eflalo data into R |

readTacsat | Read Tacsat data into R |

scree | Useful functions for the multivariate analysis of logbooks... |

segmentedTacsatSpeed | Define activity based on segmented regression of speed... |

segmentTacsatSpeed | do the distinction between fishing/non-fishing detecting the... |

selectMainSpecies | Identyfing in an EFLALO dataset which species can be... |

select_species | Useful functions for the multivariate analysis of logbooks... |

shortenEflalo | Cuts up eflalo according to any particular combination of... |

sortTacsat | Sorting Tacsat dataframe |

speciesLatinNames | speciesLatinNames |

splitAmongPings | Split values or landings from eflalo over tacsat pings |

summarizeEflalo | Summarize primary aspects of eflalo file |

summarizeTacsat | Summarize primary aspects of tacsat file |

surface | Calculate surface from grid cells or polygons |

table_variables | Useful functions for the multivariate analysis of logbooks... |

tacsat | Vessel Monitoring by Satellite system dataset |

tacsatMCP | Flag the tacsat ping inside a Minimum Convex Polygon |

tacsatMinimumConvexPolygon | Flag tacsat records that are within the convex polygon |

targetspecies | Useful functions for the multivariate analysis of logbooks... |

test.values | Useful functions for the multivariate analysis of logbooks... |

transformation_proportion | Useful functions for the multivariate analysis of logbooks... |

vmsGridCreate | function to create grids from point data by counting points... |

VMShf | Small high frequency test VMS dataset CANNOT BE DISTRIBUTED... |

VMStools-package | development of R scripts to setup the workflow of vms and... |

withinVar | Useful functions for the multivariate analysis of logbooks... |

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