src/ls-user.lisp

   1 ;;; -*- mode: lisp -*-
   2 ;;; Copyright (c) 2005--2007, by A.J. Rossini <blindglobe@gmail.com>
   3 ;;; See COPYRIGHT file for any additional restrictions (BSD license).
   4 ;;; Since 1991, ANSI was finally finished.  Edited for ANSI Common Lisp.
   5
   6 (defpackage :lisp-stat
   7     (:documentation "Experimentation package for LispStat.  Serious work
   8 should be packaged up elsewhere for reproducibility.")
   9   (:use :common-lisp
  10         :lisp-stat-object-system
  11         :lisp-stat-compound-data
  12         :lisp-stat-probability
  13         :lisp-stat-types
  14         :lisp-stat-float
  15         :lisp-stat-basics
  16         :lisp-stat-data
  17         :lisp-stat-math
  18         :lisp-stat-matrix
  19         :lisp-stat-linalg
  20         :lisp-stat-descriptive-statistics
  21         :lisp-stat-regression-linear)
  22   (:shadowing-import-from :lisp-stat-object-system
  23         slot-value call-method call-next-method)
  24   (:shadowing-import-from :lisp-stat-math
  25         expt + - * / ** mod rem abs 1+ 1- log exp sqrt sin cos tan
  26         asin acos atan sinh cosh tanh asinh acosh atanh float random
  27         truncate floor ceiling round minusp zerop plusp evenp oddp
  28         < <= = /= >= > ;;complex
  29         conjugate realpart imagpart phase
  30         min max logand logior logxor lognot ffloor fceiling
  31         ftruncate fround signum cis)
  32   (:export
  33    ;; lsobjects :
  34    defproto defproto2
  35    defmeth send
  36
  37    ;; lstypes :
  38    fixnump check-nonneg-fixnum check-one-fixnum
  39    check-one-real check-one-number
  40
  41    ;; lsmacros:
  42
  43    ;; lsfloat :
  44    machine-epsilon
  45
  46    ;; compound :
  47    compound-data-p *compound-data-proto* compound-object-p
  48    compound-data-seq compound-data-length
  49    element-list element-seq
  50    sort-data order rank
  51    recursive-map-elements map-elements
  52    repeat
  53    check-sequence
  54    get-next-element make-next-element set-next-element
  55    sequencep iseq
  56    ordered-nneg-seq
  57    select which
  58    difference rseq
  59
  60    ;; lsmath.lsp
  61    ^ ** expt + - * / mod rem pmin pmax abs 1+ 1- log exp sqrt sin cos
  62    tan asin acos atan sinh cosh tanh asinh acosh atanh float random
  63    truncate floor ceiling round minusp zerop plusp evenp oddp < <= =
  64    /= >= > ;; complex
  65    conjugate realpart imagpart phase min max
  66    logand logior logxor lognot ffloor fceiling ftruncate fround
  67    signum cis
  68
  69    ;; matrices.lisp
  70    matrixp num-rows num-cols matmult identity-matrix diagonal row-list
  71    column-list inner-product outer-product cross-product transpose
  72    bind-columns bind-rows
  73
  74    ;; linalg.lisp
  75    chol-decomp lu-decomp lu-solve determinant inverse
  76    sv-decomp qr-decomp rcondest make-rotation spline
  77    kernel-dens kernel-smooth
  78    fft make-sweep-matrix sweep-operator ax+y eigen
  79    check-real
  80    covariance-matrix matrix print-matrix solve
  81    backsolve eigenvalues eigenvectors accumulate cumsum combine
  82    lowess
  83
  84    ;; in linalg.lisp, possibly not supported by matlisp
  85    spline kernel-dens kernel-smooth
  86
  87    ;; optimize.lsp
  88    newtonmax nelmeadmax
  89
  90    ;; lispstat-macros
  91    make-rv-function make-rv-function-1
  92
  93    ;; data.lisp
  94    open-file-dialog read-data-file read-data-columns load-data
  95    load-example *variables* *ask-on-redefine*
  96    def variables savevar undef
  97
  98    ;; statistics.lsp
  99    standard-deviation quantile median interquartile-range
 100    fivnum sample
 101
 102    ;; dists
 103    log-gamma set-seed
 104    uniform-rand normal-cdf normal-quant normal-dens
 105    normal-rand bivnorm-cdf cauchy-cdf cauchy-quant cauchy-dens
 106    cauchy-rand gamma-cdf gamma-quant gamma-dens gamma-rand
 107    chisq-cdf chisq-quant chisq-dens chisq-rand beta-cdf beta-quant
 108    beta-dens beta-rand t-cdf t-quant t-dens t-rand f-cdf f-quant
 109    f-dens f-rand poisson-cdf poisson-quant poisson-pmf poisson-rand
 110    binomial-cdf binomial-quant binomial-pmf binomial-rand
 111
 112 ;;; Here is where we have a problem -- lispstat core should be core
 113 ;;; data management and config problems, with packages providing
 114 ;;; specialized extensions to LispStat, i.e. regression, nonlin
 115 ;;; regression, bayesian regression via laplace approximation, etc.
 116
 117 ;;; The following could be considered "recommended packages", similar
 118 ;;; to the idea of the recommended packages in R.
 119
 120    ;; regression.lsp
 121    regression-model regression-model-proto x y intercept sweep-matrix
 122    basis weights included total-sum-of-squares residual-sum-of-squares
 123    predictor-names response-name case-labels
 124
 125    ;; nonlin.lsp
 126    nreg-model nreg-model-proto mean-function theta-hat epsilon
 127    count-limit verbose
 128
 129    ;; bayes.lsp
 130    bayes-model bayes-model-proto bayes-internals))
 131
 132 (defpackage :lisp-stat-user
 133   (:documentation "Experimentation package for LispStat.
 134 Serious work should be placed in a similar package elsewhere for
 135 reproducibility.  But this should hint as to what needs to be
 136 done for a user- or analysis-package.")
 137   (:nicknames :ls-user)
 138   (:use :common-lisp
 139         :lisp-stat)
 140   (:shadowing-import-from :lisp-stat
 141       slot-value call-method call-next-method
 142
 143       expt + - * / ** mod rem abs 1+ 1- log exp sqrt sin cos tan
 144       asin acos atan sinh cosh tanh asinh acosh atanh float random
 145       truncate floor ceiling round minusp zerop plusp evenp oddp
 146       < <= = /= >= > > ;; complex
 147       conjugate realpart imagpart phase
 148       min max logand logior logxor lognot ffloor fceiling
 149       ftruncate fround signum cis
 150
 151       <= float imagpart))