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README

swfscMisc is a collection of utility functions used at the NOAA Southwest Fisheries Science Center in La Jolla, CA. The package contains functions for geodesic calculations, commonly used mapping functions, plotting special symbols, and miscellaneous analytical and conversion functions.

To install the stable version from CRAN:

install.packages('swfscMisc')

To install the latest version from GitHub:

# make sure you have devtools installed
if (!require('devtools')) install.packages('devtools')
# install from GitHub
devtools::install_github('ericarcher/swfscMisc')

• submit suggestions and bug-reports: https://github.com/ericarcher/swfscMisc/issues
• send a pull request: https://github.com/ericarcher/swfscMisc/
• e-mail: eric.ivan.archer@gmail.com

• Geodesic functions:
  • bearing
  • datum
  • distance
  • circle.polygon
  • convert.angle
  • convert.distance
• Plotting functions:
  • braces
  • catSpatInterp Categorical Spatial Interpolation
  • color.name
  • lab.wid
  • lat.lon.axes
  • row.col.page.fit
  • ggBiplot
  • scatterdens
  • scatterhist
  • sex.symbols
• Distribution functions:
  • betaParams
  • central.quantile
  • distSmry
  • fisher.p
  • gammaParams
  • pVal
  • sn.params
  • uniform.test
• Miscellaneous functions:
  • affin.prop
  • autoUnits
  • box.area
  • central.quantile
  • copy.tri
  • crossing.point
  • geometric.mean
  • harmonic.mean
  • isBetween
  • month2Season
  • mcmc2list
  • na.count
  • odds conversion (odds, invOdds, logOdds, invLogOdds)
  • one.arg
  • plotAssignments
  • ceiling, floor, trunc, round (.data.frame)
  • runjags2list
  • stan2list
  • setupClusters
  • which.nearest
  • zero.pad

• changed maintainer email to eric.ivan.archer@gmail.com

• fixed bug in runjags2list() if variable in monitor vector wasn’t in model
• added betaParams() and gammaParams()
• removed diversity() - now in sprex package

• removed sample.map()
• added imdo()
• added intersectingPoint()
• added ability to use modeest::mlv() to estimate mode in distSmry()
• fixed pVal() to handle NA and NaN values correctly
• deprecating diversity(). New function in sprex package.
• added runjags2list() to format posterior samples from runjags::run.jags().
• corrected package name alias documentation for CRAN

• reset setupClusters to choose correct function for OS
• added perpDist() and perpPt()
• added distSmry()
• added sn.params functions for computing skew normal parameters and moments

• removed das.* functions

• added catSpatInterp for Categorical Spatial Interpolation (based on code by Timo Grossenbacher)
• begin deprecation of das.* functions. to be removed in v1.5.
• change destination() to accept vectors and return a matrix.
• fixed plotAssignments() to not change class names.
• updated spatstat import

• fixed plotAssignments to use facets and removed grids and space around panels
• added setupClusters

• Added rounding functions for data.frames.
• Removed NEWS.md - changelog moved to README.md
• Added plotAssignments function.

• Added autoUnits function
• Changed default arguments for lat.range and lon.range to NULL in sample.map. If not specified, the ranges will be set to the ranges of the lat and lon.

• Added transparent function
• Changed distance and destination functions to accept partial matches for method of calculation, type of surface, and units

• Fixed das.read to handle errors in position and suppress warnings about NAs during numerical conversions.
• Fixed das.map to remove records with no position

• Changed isBetween to accept a vector of numbers

• Added NEWS.md
• Added diversity function (moved from strataG package)
• Added isBetween function to test if a number is between two numbers

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