Files in forestgeo/ctfs
Tools for the Analysis of Forest Dynamics

.Rbuildignore

.gitignore

.travis.yml

DESCRIPTION

NAMESPACE

NEWS.md R/NeighborDensityFun.R R/RipUvK.R R/abund.fit.CTFS.R R/abundance.R R/biomass.CTFSdb.R R/block.analysis.R R/calcalpha.R R/ctfs.R R/dat_monthnames.R R/demogChange.R R/distributions.R R/fr-biomass.R R/fr-entitle_function.R R/fr-utils.R R/geometry.R R/growth.R R/growthfit.bin.R R/growthfit.graph.R R/imageJ.R R/lmerBayes.R R/map.R R/mapresponse.R R/modelBayes.R R/mortality.R R/quadfunc.R R/recruitment.R R/slope.R R/solvetopo.R R/spparea.R R/startCTFS.R R/statistics.R

R/sysdata.rda

R/utilities.R R/utilitiesCTFS.R README.Rmd README.md

_pkgdown.yml

ctfs.Rproj

data-raw/.gitignore

data-raw/folder_files.R

data-raw/folder_files.csv

data-raw/iss32_fun_table_edited.csv

data-raw/monthnames.R

data-raw/mvpart/.gitignore

data-raw/mvpart/KC3spp20.csv

data-raw/mvpart/Screen Shot 2017-06-21 at 4.49.28 PM.png

data-raw/mvpart/export_mvpart_where.csv

data-raw/mvpart/kc.hab.csv

data-raw/mvpart/mvpart.Rmd

data-raw/params_table.csv

data-raw/try/forestr_iss13.R

data/MONTHNAMES.rda

docs/LICENSE.html

docs/authors.html

docs/docsearch.css

docs/docsearch.js

docs/index.html

docs/link.svg

docs/news/index.html

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/AGB.dbtable.html

docs/reference/AGB.ind.html

docs/reference/AGB.tree.html

docs/reference/Annuli.html

docs/reference/AssignDiag.html

docs/reference/BadParam.html

docs/reference/CI.html

docs/reference/CTFSplot.html

docs/reference/CalcRingArea.html

docs/reference/Chave.AGB.html

docs/reference/CountByGroup.html

docs/reference/DBHtransition.html

docs/reference/Gibbs.normalmean.html

docs/reference/Gibbs.normalvar.html

docs/reference/Gibbs.regsigma.html

docs/reference/Gibbs.regslope.html

docs/reference/IfElse.html

docs/reference/MONTHNAMES.html

docs/reference/NDcount.html

docs/reference/NeighborDensities.html

docs/reference/RipUvK.html

docs/reference/SectionCorrection.html

docs/reference/StringToVect.html

docs/reference/TextToRdata.html

docs/reference/abund.manycensus.html

docs/reference/abundance.html

docs/reference/abundance.spp.html

docs/reference/abundanceperquad.html

docs/reference/abundmodel.fit.html

docs/reference/addBinParam.html

docs/reference/agb.dbhmodel.html

docs/reference/agb.model.html

docs/reference/allquadratslopes.html

docs/reference/angleBisector.html

docs/reference/are.ptsinside.html

docs/reference/args_of.html

docs/reference/arrangeParam.Gibbs.2D.html

docs/reference/arrangeParam.Gibbs.html

docs/reference/arrangeParam.llike.2D.html

docs/reference/arrangeParam.llike.html

docs/reference/assemble.demography.html

docs/reference/assembleBinOutput.html

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docs/reference/asymp.ht.html

docs/reference/asymptote.exp.html

docs/reference/attach_if_needed.html

docs/reference/autoregression.html

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docs/reference/bad.binparam.html

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docs/reference/beta.normalized.html

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docs/reference/betaproduct.html

docs/reference/binGraphManySpecies.Panel.html

docs/reference/binGraphManySpecies.html

docs/reference/binGraphSampleSpecies.html

docs/reference/biomass.CTFSdb.html

docs/reference/biomass.change.html

docs/reference/biomass.growth.html

docs/reference/bootconf.html

docs/reference/bootstrap.corr.html

docs/reference/border.distance.html

docs/reference/calc.directionslope.html

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docs/reference/calcMortIndivTable.html

docs/reference/calcS.alpha.html

docs/reference/calcalpha.html

docs/reference/calcslope.html

docs/reference/calculateBinModel.AIC.html

docs/reference/calculateBinModel.BIC.html

docs/reference/calculateBinModel.bestpred.html

docs/reference/cartesian.to.polar.html

docs/reference/center.predictors.html

docs/reference/charlocate.html

docs/reference/circle.html

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docs/reference/create.fulldate.html

docs/reference/create.fulldate.split.html

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docs/reference/extract.growthdata.html

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docs/reference/fromjulian.html

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docs/reference/full.likelihood.lmerBayes.html

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docs/reference/hyper.abundGibbs.html

docs/reference/hyper.mortGibbs.html

docs/reference/imageGraph.html

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docs/reference/image_dataframe.html

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docs/reference/index.to.gxgy.html

docs/reference/index.to.rowcol.html

docs/reference/individual_grow.table.html

docs/reference/individual_mort.table.html

docs/reference/inside.rect.html

docs/reference/insideRectangle.html

docs/reference/intersection.line.curve.html

docs/reference/intersection.of.lines.html

docs/reference/invlogit.html

docs/reference/is.between.html

docs/reference/is.leap.html

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docs/reference/llike.GaussModel.html

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docs/reference/llike.model.lmer.html

docs/reference/lmerBayes.html

docs/reference/lmerBayes.hyperllike.mean.html

docs/reference/lmerBayes.hyperllike.sigma.html

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docs/reference/lmerMortLinear.html

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docs/reference/make.CredIntervalVect.html

docs/reference/map.html

docs/reference/map1species.html

docs/reference/map2species.html

docs/reference/maptopo.html

docs/reference/match.dataframe.html

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docs/reference/mortality.calculation.html

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docs/reference/mortality.eachspp.html

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docs/reference/rasympower.html

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inst/figures/logo.png

man-roxygen/add_plot.R man-roxygen/alivecode.R man-roxygen/allcns.R man-roxygen/b_intercept.R man-roxygen/badparam.R man-roxygen/censdata.R man-roxygen/census1_census2.R man-roxygen/center_distribution.R man-roxygen/clr.R man-roxygen/data_dataframe.R man-roxygen/dbh.R man-roxygen/dbhunit.R man-roxygen/debug.R man-roxygen/err_limit.R man-roxygen/export.R man-roxygen/export_format.R man-roxygen/fit.R man-roxygen/graphit.R man-roxygen/gridsize_map.R man-roxygen/gridsize_side.R man-roxygen/gx_gy.R man-roxygen/h_w.R man-roxygen/ht_wt.R man-roxygen/index_quad_num.R man-roxygen/ltype.R man-roxygen/ltype_lwidth.R man-roxygen/lwidth.R man-roxygen/m_slope.R man-roxygen/maxgrow.R man-roxygen/mean1_sd1.R man-roxygen/mean_sd_lambda.R man-roxygen/mindbh.R man-roxygen/modeltype.R man-roxygen/n_indiv_cnt.R man-roxygen/n_pass_runif.R man-roxygen/newgraph.R man-roxygen/outfile.R man-roxygen/plot.R man-roxygen/plotdim.R man-roxygen/plotside.R man-roxygen/pts_matrix.R man-roxygen/ptsize_cex.R man-roxygen/r.R man-roxygen/reuse_good_code.R man-roxygen/rounddown.R man-roxygen/s_char_vector.R man-roxygen/s_spp_cnt.R man-roxygen/showstep.R man-roxygen/size.R man-roxygen/start.R man-roxygen/steps.R man-roxygen/subquadratsuffix.R man-roxygen/type.R man-roxygen/x_coordinates.R man-roxygen/xcol_ycol.R man-roxygen/xname_yname.R man-roxygen/xrange_yrange.R man-roxygen/y_coordinates.R man-roxygen/z_num_vector.R man/AGB.dbtable.Rd man/AGB.ind.Rd man/AGB.tree.Rd man/Annuli.Rd man/AssignDiag.Rd man/BadParam.Rd man/CI.Rd man/CTFSplot.Rd man/CalcRingArea.Rd man/Chave.AGB.Rd man/CountByGroup.Rd man/DBHtransition.Rd man/Gibbs.normalmean.Rd man/Gibbs.normalvar.Rd man/Gibbs.regsigma.Rd man/Gibbs.regslope.Rd man/IfElse.Rd man/MONTHNAMES.Rd man/NDcount.Rd man/NeighborDensities.Rd man/RipUvK.Rd man/SectionCorrection.Rd man/StringToVect.Rd man/TextToRdata.Rd man/abund.manycensus.Rd man/abundance.Rd man/abundance.spp.Rd man/abundanceperquad.Rd man/abundmodel.fit.Rd man/addBinParam.Rd man/agb.dbhmodel.Rd man/agb.model.Rd man/allquadratslopes.Rd man/angleBisector.Rd man/are.ptsinside.Rd man/args_of.Rd man/arrangeParam.Gibbs.2D.Rd man/arrangeParam.Gibbs.Rd man/arrangeParam.llike.2D.Rd man/arrangeParam.llike.Rd man/assemble.demography.Rd man/assembleBinOutput.Rd man/asymp.ht.Rd man/asymp.ht.fixmax.Rd man/asymptote.exp.Rd man/attach_if_needed.Rd man/autoregression.Rd man/ba.Rd man/bad.asymexp.param.Rd man/bad.asympower.param.Rd man/bad.binparam.Rd man/bad.binsdpar.Rd man/bad.paretopar.Rd man/badSD.Rd man/basum.Rd man/beta.normalized.Rd man/beta.total.Rd man/betaproduct.Rd man/binGraphManySpecies.Panel.Rd man/binGraphManySpecies.Rd man/binGraphSampleSpecies.Rd man/biomass.CTFSdb.Rd man/biomass.change.Rd man/biomass.growth.Rd man/bootconf.Rd man/bootstrap.corr.Rd man/border.distance.Rd man/calc.directionslope.Rd man/calc.gradient.Rd man/calcMortIndivTable.Rd man/calcS.alpha.Rd man/calcalpha.Rd man/calcslope.Rd man/calculateBinModel.AIC.Rd man/calculateBinModel.BIC.Rd man/calculateBinModel.bestpred.Rd man/cartesian.to.polar.Rd man/center.predictors.Rd man/charlocate.Rd man/circle.Rd man/circlearea.Rd man/clean.demography.Rd man/colMedians.Rd man/coldata.to.imagemat.Rd man/compare.growthbinmodel.Rd man/complete.plotmap.Rd man/constant.Rd man/constant.bin.Rd man/constant.linear.Rd man/convert.factor.Rd man/convert.rowcol.Rd man/countEmpty.Rd man/countNA.Rd man/countUnique.Rd man/countone.Rd man/countpresent.Rd man/countspp.Rd man/countzero.Rd man/covTocorr.Rd man/coverage.diag.Rd man/create.fulldate.Rd man/create.fulldate.split.Rd man/create.neighbordata.Rd man/ctfs-package.Rd man/cumul.above.Rd man/d.calcS.alpha.Rd man/dasymexp.Rd man/dasymnorm.Rd man/dasympower.Rd man/dbeta.reparam.Rd man/dbinomrev.Rd man/default.badpar.Rd man/define.graphwindow.Rd man/defineBinBreaks.Rd man/defineSDpar.Rd man/density_ind.Rd man/detachfiles.Rd man/dexp.sin.Rd man/dgamma.mean.Rd man/dgamma.meansd.Rd man/dgamma.scale.Rd man/dgammaMinusdexp.Rd man/dgammaPlusdexp.Rd man/dgammadexp.Rd man/discrete.model.Rd man/discrete.mortmodel.Rd man/distance.Rd man/distance.to.side.Rd man/ditch.Rd man/dmixnorm.Rd man/dnormprod0.Rd man/dnormrev.Rd man/doublenormal.Rd man/dpois.max.Rd man/dpois.maxtrunc.Rd man/dpois.rearrange.Rd man/dpois.trunc.Rd man/dpower.Rd man/draw.axes.Rd man/drawrectangle.Rd man/drp.Rd man/dsymexp.Rd man/dweibull.3param.Rd man/elev.to.list.Rd man/ellipse.Rd man/enoughSamplePerBin.Rd man/exclude.unidentified.Rd man/exp_2par.Rd man/explode.Rd man/expon.model.Rd man/exponential.sin.Rd man/extract.growthdata.Rd man/fill.1dimension.Rd man/fill.dimension.Rd man/find.climits.Rd man/find.nonNA.Rd man/find.xaxis.hist.Rd man/findborderquads.Rd man/findneighborabund.Rd man/fit.beta.normal.Rd man/fit.logistic.Rd man/fit.pdf.Rd man/fitSeveralAbundModel.Rd man/fitnorm.Rd man/fromjulian.Rd man/full.abundmodel.llike.Rd man/full.likelihood.lmerBayes.Rd man/full.xygrid.Rd man/fullcircle.Rd man/fullellipse.Rd man/fullplot.imageJ.Rd man/get.filename.Rd man/getTopoLinks.Rd man/getquadratname.Rd man/getsmallerquads.Rd man/graph.abundmodel.Rd man/graph.growthmodel.Rd man/graph.growthmodel.spp.Rd man/graph.modeldiag.Rd man/graph.mvnorm.Rd man/graph.outliers.Rd man/graph.outliers.spp.Rd man/graph.quadrats.Rd man/graphFilledBand.Rd man/growth.Rd man/growth.biomass.indiv.Rd man/growth.dbh.Rd man/growth.eachspp.Rd man/growth.flexbin.Rd man/growth.indiv.Rd man/gsp.Rd man/gxgy.to.hectindex.Rd man/gxgy.to.index.Rd man/gxgy.to.lxly.Rd man/gxgy.to.quad.Rd man/gxgy.to.rowcol.Rd man/harmonic.mean.Rd man/hist_compare.Rd man/hyper.abundGibbs.Rd man/hyper.mortGibbs.Rd man/imageGraph.Rd man/imageJ.to.lxly.Rd man/image_dataframe.Rd man/index.to.gxgy.Rd man/index.to.rowcol.Rd man/individual_grow.table.Rd man/individual_mort.table.Rd man/inside.rect.Rd man/insideRectangle.Rd man/intersection.line.curve.Rd man/intersection.of.lines.Rd man/invlogit.Rd man/is.between.Rd man/is.leap.Rd man/is.odd.Rd man/is_na_row.Rd man/ispt.inside.Rd man/kurtosis.Rd man/left.Rd man/leftbut.Rd man/line.intersection.pts.Rd man/linear.model.Rd man/linear.model.ctr.Rd man/linear.mortmodel.Rd man/linearmodel.bin.Rd man/linearmodel.bin.set.Rd man/llike.GaussModel.Rd man/llike.GaussModelSD.Rd man/llike.linearbin.optim.Rd man/llike.model.lmer.Rd man/lmerBayes.Rd man/lmerBayes.hyperllike.mean.Rd man/lmerBayes.hyperllike.sigma.Rd man/lmerMortFixedTime.Rd man/lmerMortLinear.Rd man/load.species.Rd man/log_model.Rd man/logical.grep.Rd man/logistic.ctr.Rd man/logistic.inter.Rd man/logistic.multiplicative.Rd man/logistic.power.Rd man/logistic.power.mode.Rd man/logistic.power_simple.Rd man/logistic.standard.Rd man/logistic.sum.squares.Rd man/logisticmodel.bin.Rd man/logit.Rd man/lxly.to.p5.Rd man/majoraxisreg.Rd man/majoraxisreg.no.int.Rd man/make.CredIntervalVect.Rd man/map.Rd man/map1species.Rd man/map2species.Rd man/maptopo.Rd man/match.dataframe.Rd man/mergeParam.Rd man/merge_data.Rd man/metrop1step.Rd man/metrop1step.discrete.Rd man/midPoint.Rd man/minum.beta.normal.Rd man/minum.mixnorm.Rd man/minum.normal.Rd man/minum.perpdist.Rd man/model.littleR.Gibbs.Rd man/model.xy.Rd man/modelBayes.Rd man/mortality.Rd man/mortality.calculation.Rd man/mortality.dbh.Rd man/mortality.eachspp.Rd man/mvrnormRC.Rd man/neighbors.Rd man/nhd.Rd man/normalproduct.Rd man/order.by.rowcol.Rd man/order.bynumber.Rd man/overlay.growthbinmodel.Rd man/parallel.line.Rd man/partialcirclearea.Rd man/paste_path.Rd man/pdf.allplot.Rd man/perpendicular.distance.Rd man/perpendicular.line.Rd man/pexp.sin.Rd man/plot_wavelet.Rd man/png.allplot.Rd man/polar.to.cartesian.Rd man/pop.change.Rd man/pop.change.dbh.Rd man/pospower.Rd man/predht.asym.Rd man/print_all.Rd man/prob.N1.Rd man/pst.Rd man/psymexp.Rd man/pts.to.interceptslope.Rd man/pweibull.3param.Rd man/qasymexp.Rd man/qasympower.Rd man/quad.to.gxgy.Rd man/quadslope.Rd man/randomElement.Rd man/randomRow.Rd man/rarefy.diversity.Rd man/rasterize.Rd man/rasympower.Rd man/read_csv_alt.Rd man/readelevdata.Rd man/rearrangeSurveyData.Rd man/recalculate.lmerBayesllike.Rd man/recruitment.Rd man/recruitment.eachspp.Rd man/regress.loglog.Rd man/regress.plot.Rd man/regression.Bayes.Rd man/regslope.Rd man/regslope.noint.Rd man/regsum.Rd man/resetParam.Rd man/residual.llike.lmerBayes.Rd man/residual.llike.modelBayes.Rd man/restoreParamFile.Rd man/rgamma.meansd.Rd man/right.Rd man/rightbut.Rd man/rm_na_row.Rd man/rmixnorm.Rd man/rndown5.Rd man/rowcol.to.index.Rd man/rpois.max.Rd man/rpois.trunc.Rd man/rpower.Rd man/rsymexp.Rd man/run.growthbin.manyspp.Rd man/run.growthfit.bin.Rd man/save.searchpath.Rd man/saveParamFile.Rd man/se.kurtosis.Rd man/se.skewness.Rd man/segmentPt.Rd man/selectrandomquad.Rd man/setsize.Rd man/simple.Rd man/simple.model.Rd man/skewness.Rd man/solve_topo.Rd man/some_but_not_all_is_na.Rd man/split_data.Rd man/spmean.mort.abundGibbs.Rd man/spparea.sq.Rd man/standardreg.no.int.Rd man/startCTFS.Rd man/strip_path.Rd man/strip_rd.Rd man/summaryMCMC.Rd man/sumsq.Rd man/testmcmcfunc.Rd man/tojulian.Rd man/torus.shift.Rd man/trim.Rd man/trim.growth.Rd man/unidentified.species.Rd man/vectToCommas.Rd man/wavelet.allsp.Rd man/wavelet.bivariate.Rd man/wavelet.univariate.Rd man/weibull.mean.3param.Rd man/weibull.median.3param.Rd man/weibull.sd.3param.Rd man/which.allnonNA.Rd man/which.maxNAs.Rd man/which.nonNA.Rd man/which.vmatch.Rd man/wideEnoughBins.Rd man/wsgdata_dummy.Rd man/xydist.Rd man/xydistmat.Rd man/xydistvect.Rd tests/testthat.R

tests/testthat/.gitignore

tests/testthat/character(0)

tests/testthat/errors.R

tests/testthat/ref_abund_manycensus.rds

tests/testthat/ref_allquadratslopes_old.rds

tests/testthat/ref_biomass_ctfsdb

tests/testthat/ref_calcMortIndivTable.rds

tests/testthat/ref_dgammaMinusdexp.rds

tests/testthat/ref_extract_growthdata.rds

tests/testthat/ref_extract_growthdata_old.rds

tests/testthat/ref_growth_indiv.rds

tests/testthat/ref_individual_grow_table.rds

tests/testthat/ref_individual_grow_table_old.rds

tests/testthat/ref_individual_mort_table.rds

tests/testthat/ref_individual_mort_table_old.rds

tests/testthat/ref_lmerBayes_nms.rds

tests/testthat/ref_mortality_eachspp.rds

tests/testthat/ref_selectrandomquad2.rds

tests/testthat/ref_split_data.rds

tests/testthat/ref_spparea_sq_old.rds

tests/testthat/test-bci_data.R tests/testthat/test-bci_is_available.R tests/testthat/test-biomass.R tests/testthat/test-complete_partial_args.R tests/testthat/test-growth_changes.R tests/testthat/test-growth_vs_dbh.R tests/testthat/test-mortality_changes.R tests/testthat/test-mortality_vs_dbh.R tests/testthat/test-remove_na_rows.R tests/testthat/test-replace_subset.R

forestgeo/ctfs documentation built on May 3, 2019, 6:44 p.m.

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