SpeciesMix: Fit Mixtures of Archetype Species

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Fitting Mixtures to Species distributions using BFGS and analytical derivatives.

Author
Piers K Dunstan, Scott D Foster and Ross Darnell
Date of publication
2016-10-29 10:48:16
Maintainer
Piers Dunstan <Piers.Dunstan@csiro.au>
License
GPL-2
Version
0.3.4

View on CRAN

Man pages

artificial.data
Create an artificial data set
clusterSelect
Fit SpeciesMix for a range of vaules for G
logLike.pars
logLike.pars
predict.archetype
Predict presence of archetypes from fitted model
print.archetype
Print archetypes from fitted model
SpeciesMix
Fit finite mixture models to species distributions
SpeciesMix_overview
Package Description

Files in this package

SpeciesMix
SpeciesMix/src
SpeciesMix/src/SpeciesMix-Deriv.cpp
SpeciesMix/src/Tweedie.h
SpeciesMix/src/Tweedie.cc
SpeciesMix/src/TweedieDeriv.cc
SpeciesMix/src/SpeciesMix-Deriv.h
SpeciesMix/src/cppad
SpeciesMix/src/cppad/check_numeric_type.hpp
SpeciesMix/src/cppad/CheckSimpleVector.h
SpeciesMix/src/cppad/CheckNumericType.h
SpeciesMix/src/cppad/declare.hpp
SpeciesMix/src/cppad/CppAD.h
SpeciesMix/src/cppad/TrackNewDel.h
SpeciesMix/src/cppad/pow_int.hpp
SpeciesMix/src/cppad/PowInt.h
SpeciesMix/src/cppad/LuFactor.h
SpeciesMix/src/cppad/RombergOne.h
SpeciesMix/src/cppad/config.h.in
SpeciesMix/src/cppad/speed
SpeciesMix/src/cppad/speed/det_grad_33.hpp
SpeciesMix/src/cppad/speed/det_by_minor.hpp
SpeciesMix/src/cppad/speed/det_33.hpp
SpeciesMix/src/cppad/speed/uniform_01.hpp
SpeciesMix/src/cppad/speed/ode_evaluate.hpp
SpeciesMix/src/cppad/speed/det_of_minor.hpp
SpeciesMix/src/cppad/speed/sparse_evaluate.hpp
SpeciesMix/src/cppad/speed/det_by_lu.hpp
SpeciesMix/src/cppad/CppAD_vector.h
SpeciesMix/src/cppad/lu_factor.hpp
SpeciesMix/src/cppad/near_equal.hpp
SpeciesMix/src/cppad/SpeedTest.h
SpeciesMix/src/cppad/OdeGearControl.h
SpeciesMix/src/cppad/local
SpeciesMix/src/cppad/local/cppad_assert.hpp
SpeciesMix/src/cppad/local/ad.hpp
SpeciesMix/src/cppad/local/asin_op.hpp
SpeciesMix/src/cppad/local/forward.hpp
SpeciesMix/src/cppad/local/cap_taylor.hpp
SpeciesMix/src/cppad/local/atan2.hpp
SpeciesMix/src/cppad/local/preprocessor.hpp
SpeciesMix/src/cppad/local/atan_op.hpp
SpeciesMix/src/cppad/local/cond_exp.hpp
SpeciesMix/src/cppad/local/ad_copy.hpp
SpeciesMix/src/cppad/local/mul_eq.hpp
SpeciesMix/src/cppad/local/rev_hes_sweep.hpp
SpeciesMix/src/cppad/local/add.hpp
SpeciesMix/src/cppad/local/test_vector.hpp
SpeciesMix/src/cppad/local/sparse_hessian.hpp
SpeciesMix/src/cppad/local/define.hpp
SpeciesMix/src/cppad/local/convert.hpp
SpeciesMix/src/cppad/local/bool_fun.hpp
SpeciesMix/src/cppad/local/op_code.hpp
SpeciesMix/src/cppad/local/output.hpp
SpeciesMix/src/cppad/local/tape_link.hpp
SpeciesMix/src/cppad/local/default.hpp
SpeciesMix/src/cppad/local/unary_plus.hpp
SpeciesMix/src/cppad/local/ad_fun.hpp
SpeciesMix/src/cppad/local/independent.hpp
SpeciesMix/src/cppad/local/var2par.hpp
SpeciesMix/src/cppad/local/for_jac_sweep.hpp
SpeciesMix/src/cppad/local/dependent.hpp
SpeciesMix/src/cppad/local/jacobian.hpp
SpeciesMix/src/cppad/local/mul.hpp
SpeciesMix/src/cppad/local/pow.hpp
SpeciesMix/src/cppad/local/sub_op.hpp
SpeciesMix/src/cppad/local/fun_check.hpp
SpeciesMix/src/cppad/local/sin_cos.hpp
SpeciesMix/src/cppad/local/reverse_sweep.hpp
SpeciesMix/src/cppad/local/compare.hpp
SpeciesMix/src/cppad/local/for_one.hpp
SpeciesMix/src/cppad/local/forward_sweep.hpp
SpeciesMix/src/cppad/local/equal_op_seq.hpp
SpeciesMix/src/cppad/local/near_equal_ext.hpp
SpeciesMix/src/cppad/local/log_op.hpp
SpeciesMix/src/cppad/local/acos_op.hpp
SpeciesMix/src/cppad/local/user_ad.hpp
SpeciesMix/src/cppad/local/ad_valued.hpp
SpeciesMix/src/cppad/local/div.hpp
SpeciesMix/src/cppad/local/op.hpp
SpeciesMix/src/cppad/local/abs.hpp
SpeciesMix/src/cppad/local/bender_quad.hpp
SpeciesMix/src/cppad/local/arithmetic.hpp
SpeciesMix/src/cppad/local/hessian.hpp
SpeciesMix/src/cppad/local/sqrt_op.hpp
SpeciesMix/src/cppad/local/print_for.hpp
SpeciesMix/src/cppad/local/rev_sparse_hes.hpp
SpeciesMix/src/cppad/local/declare_ad.hpp
SpeciesMix/src/cppad/local/omp_max_thread.hpp
SpeciesMix/src/cppad/local/par_var.hpp
SpeciesMix/src/cppad/local/for_sparse_jac.hpp
SpeciesMix/src/cppad/local/recorder.hpp
SpeciesMix/src/cppad/local/discrete.hpp
SpeciesMix/src/cppad/local/fun_eval.hpp
SpeciesMix/src/cppad/local/sparse.hpp
SpeciesMix/src/cppad/local/for_two.hpp
SpeciesMix/src/cppad/local/drivers.hpp
SpeciesMix/src/cppad/local/vec_ad.hpp
SpeciesMix/src/cppad/local/undef.hpp
SpeciesMix/src/cppad/local/ordered.hpp
SpeciesMix/src/cppad/local/ad_binary.hpp
SpeciesMix/src/cppad/local/ad_tape.hpp
SpeciesMix/src/cppad/local/add_eq.hpp
SpeciesMix/src/cppad/local/base_complex.hpp
SpeciesMix/src/cppad/local/rev_two.hpp
SpeciesMix/src/cppad/local/div_op.hpp
SpeciesMix/src/cppad/local/sub_eq.hpp
SpeciesMix/src/cppad/local/rev_sparse_jac.hpp
SpeciesMix/src/cppad/local/forward0sweep.hpp
SpeciesMix/src/cppad/local/player.hpp
SpeciesMix/src/cppad/local/abort_recording.hpp
SpeciesMix/src/cppad/local/rev_jac_sweep.hpp
SpeciesMix/src/cppad/local/sub.hpp
SpeciesMix/src/cppad/local/bool_valued.hpp
SpeciesMix/src/cppad/local/identical.hpp
SpeciesMix/src/cppad/local/rev_one.hpp
SpeciesMix/src/cppad/local/div_eq.hpp
SpeciesMix/src/cppad/local/value.hpp
SpeciesMix/src/cppad/local/sparse_jacobian.hpp
SpeciesMix/src/cppad/local/math_other.hpp
SpeciesMix/src/cppad/local/abs_op.hpp
SpeciesMix/src/cppad/local/reverse.hpp
SpeciesMix/src/cppad/local/exp_op.hpp
SpeciesMix/src/cppad/local/unary_minus.hpp
SpeciesMix/src/cppad/local/compute_assign.hpp
SpeciesMix/src/cppad/local/mul_op.hpp
SpeciesMix/src/cppad/local/lu_ratio.hpp
SpeciesMix/src/cppad/local/bool_fun_link.hpp
SpeciesMix/src/cppad/local/add_op.hpp
SpeciesMix/src/cppad/local/erf.hpp
SpeciesMix/src/cppad/local/integer.hpp
SpeciesMix/src/cppad/local/fun_construct.hpp
SpeciesMix/src/cppad/local/std_math_ad.hpp
SpeciesMix/src/cppad/Runge45.h
SpeciesMix/src/cppad/lu_solve.hpp
SpeciesMix/src/cppad/ErrorHandler.h
SpeciesMix/src/cppad/config.h
SpeciesMix/src/cppad/OdeGear.h
SpeciesMix/src/cppad/nan.hpp
SpeciesMix/src/cppad/Rosen34.h
SpeciesMix/src/cppad/error_handler.hpp
SpeciesMix/src/cppad/runge_45.hpp
SpeciesMix/src/cppad/ode_err_control.hpp
SpeciesMix/src/cppad/ode_gear_control.hpp
SpeciesMix/src/cppad/romberg_one.hpp
SpeciesMix/src/cppad/OdeErrControl.h
SpeciesMix/src/cppad/RombergMul.h
SpeciesMix/src/cppad/std_math_unary.hpp
SpeciesMix/src/cppad/rosen_34.hpp
SpeciesMix/src/cppad/check_simple_vector.hpp
SpeciesMix/src/cppad/lu_invert.hpp
SpeciesMix/src/cppad/vector.hpp
SpeciesMix/src/cppad/LuSolve.h
SpeciesMix/src/cppad/track_new_del.hpp
SpeciesMix/src/cppad/stamp-h1
SpeciesMix/src/cppad/NearEqual.h
SpeciesMix/src/cppad/ode_gear.hpp
SpeciesMix/src/cppad/LuInvert.h
SpeciesMix/src/cppad/cppad.hpp
SpeciesMix/src/cppad/poly.hpp
SpeciesMix/src/cppad/Poly.h
SpeciesMix/src/cppad/speed_test.hpp
SpeciesMix/src/cppad/romberg_mul.hpp
SpeciesMix/NAMESPACE
SpeciesMix/R
SpeciesMix/R/SpeciesMix.R
SpeciesMix/MD5
SpeciesMix/DESCRIPTION
SpeciesMix/man
SpeciesMix/man/SpeciesMix_overview.Rd
SpeciesMix/man/clusterSelect.Rd
SpeciesMix/man/predict.archetype.Rd
SpeciesMix/man/print.archetype.Rd
SpeciesMix/man/logLike.pars.Rd
SpeciesMix/man/artificial.data.Rd
SpeciesMix/man/SpeciesMix.Rd
SpeciesMix/INDEX