Man pages for einarhjorleifsson/vms
For analysing fisheries VMS (Vessel Monitoring System) data

acshortcut for as.character
activityTacsatDefine activity of fishing vessel based on speed profile...
activityTacsatAnalyseAnalyse speed profiles to define number of peaks.
addWidthAdd width of gear to interpolated gear track
afshortcut for as.factor
anshortcut for as.numeric
anfshortcut for as.numeric(as.character())
bearingCompute bearing between two points on a sphere (approximation...
bindAllMergedTablesbind all individual merged tables into a big one
building_tab_pcaUseful functions for the multivariate analysis of logbooks...
calc_mcpComputing the Minimum Convex Polygon (MCP)
calculateCICalculate the CI between two succeeding VMS datapoints
calculateSpeedCalculate the speed of the vessel at each ping
callPeakValueInternal function to retreive information on number of peaks
clipObs2TacsatFind tacsat records close to observation data records
c.listquoteProduce quoted list for use within data.table
compareToOrdinationCompare the metiers found with the classification from...
correspLevel7to5correspLevel7to5
correspMixedMetiercorrespMixedMetier
countPingsCount the number of VMS pings in a selection
createGridcreate a Grid (GridTopology: sp) depending on x and y limits...
CSquareCalculate the CSquare notation from the GPS locations
CSquare2LonLatCalculate the GPS notation from the CSquare notation
degree2KmCompute distance from degrees into kilometers
destFromBearingFind destination from point of origin given bearing and...
diffInterCalculate distance between interpolation and reference set
distanceCompute distance between two points on a sphere...
distanceInterpolationCalculate the distance (in km) from an interpolated dataset
distanceTacsatCalculate the distance (in km) from a Tacsat dataset
efforteffort
eflaloVessel logbook dataset
eflalo2PingsMerge eflalo to tacsat pings
eflalo2relationalTurn eflalo dataset into relational format
eflaloHaul2TacsatConvert eflalo (haul by haul / log-event) to tacsat format
equalDistanceInterpolated points at equal distance
estimatePropFishingEstimate the proportion fishing per fishing trip
euharbourseuharbours
europaPolygon dataset of Europe
extractTableMainSpeciesFinding Metiers from a reduced EFLALO dataset, step 1 :...
filterTacsatFilter out duplicated or out-of-range Tacsat datapoints
findEndTacsatFinding the succeeding Tacsat datapoint based on an interval...
formatEflaloFormat Eflalo data to ensure that all columns are in right...
formatTacsatFormat tacsat data to ensure that all columns are in right...
getEflaloMetierLevel7Finding Metiers from a full EFLALO dataset, general function...
getMetierClustersFinding metiers from a reduced EFLALO dataset, step 3:...
getndpGet Number of Decimal Places
getTableAfterPCAFinding Metiers from a reduced EFLALO dataset, step 2:...
harboursDataframe containing > 3500 harbours primarily Europe
ICESareaGet ICES area from coordinates
ICESareasSpatialPolygons dataset of ICESareas
ICESrectangleGet ICES rectangle from coordinates
ICESrectangle2LonLatConvert the ICES rectangle to coordinates
indicatorsCalculate the DCF indicators
interCubicHermiteSplineInterpolate using Cubic Hermite Spline
interpolateTacsatFind interpolated points between two succeeding GPS...
interpolation2TacsatConvert the output (a list) from interpolateTacsat to tacsat
interStraightLineInterpolate using Straight line
intervalTacsatReturn the interval time between pings
kgeurReturn kg and euro column index of eflalo dataset
km2DegreeCompute distance from kilometers into degrees
labellingHaulsLabelling fishing operations
landingsMaps2GIFanimgenerate some gif animations from the landings maps
lonLat2SpatialPolygonsCreates a 'SpatialPolygons' object from longitude-latitude...
lonLatRatioCalculate the ratio between 1 degree in longitude versus 1...
mapGridfunction to map grids
maxRangeCIComputation of outer range of vessel trajectory between two...
mcp.areaHidden function to calculate Minimum Convex Polygon
mergeEflalo2PingsCoupling of VMS and logbooks data including landings...
mergeEflalo2TacsatmergeEflalo2Tacsat
N1p02-dimensional Gaussian distribution with two-peak possibility
outsideMaxRangecompute fraction of Confidence Interval that is located...
pings2EffortMapsgenerate some fishing effort maps from the merged output...
pings2Fishframeconvert the merged (VMS + logbooks) data.frame to comply with...
pings2LandingsMapsgenerate some landings maps from the merged output table
plot_mcpPlot the Minimum Convex Polygon
plotToolsPlot eflalo or tacsat files
plotTreeMapPlot a squarified treemap of landing proportion per cell.
pointInHarbourFind points in harbour within specified range
pointOnLandFind points on land given a set of coordinates
poolEflaloSpeciesmerge species in eflalo to reduce the size of data according...
predictMetierFinding metiers for a new reduced EFLALO dataset from a...
raiseTacsatRaise the effort in tacsat to the effort available in eflalo.
rbindEflaloRow bind two eflalo sets together
rbindTacsatRow bind two tacsat sets together
readEflaloRead Eflalo data into R
readTacsatRead Tacsat data into R
screeUseful functions for the multivariate analysis of logbooks...
segmentedTacsatSpeedDefine activity based on segmented regression of speed...
segmentTacsatSpeeddo the distinction between fishing/non-fishing detecting the...
selectMainSpeciesIdentyfing in an EFLALO dataset which species can be...
select_speciesUseful functions for the multivariate analysis of logbooks...
shortenEflaloCuts up eflalo according to any particular combination of...
sortTacsatSorting Tacsat dataframe
speciesLatinNamesspeciesLatinNames
splitAmongPingsSplit values or landings from eflalo over tacsat pings
summarizeEflaloSummarize primary aspects of eflalo file
summarizeTacsatSummarize primary aspects of tacsat file
surfaceCalculate surface from grid cells or polygons
table_variablesUseful functions for the multivariate analysis of logbooks...
tacsatVessel Monitoring by Satellite system dataset
tacsatMCPFlag the tacsat ping inside a Minimum Convex Polygon
tacsatMinimumConvexPolygonFlag tacsat records that are within the convex polygon
targetspeciesUseful functions for the multivariate analysis of logbooks...
test.valuesUseful functions for the multivariate analysis of logbooks...
transformation_proportionUseful functions for the multivariate analysis of logbooks...
vmsGridCreatefunction to create grids from point data by counting points...
VMShfSmall high frequency test VMS dataset CANNOT BE DISTRIBUTED...
VMStools-packagedevelopment of R scripts to setup the workflow of vms and...
withinVarUseful functions for the multivariate analysis of logbooks...
einarhjorleifsson/vms documentation built on May 13, 2017, 4:03 p.m.