Program CANOCO Version 4.0 September 1997 - written by Cajo J.F. ter Braak Copyright (c) 1988-1997 Centre for Biometry Wageningen, CPRO-DLO Box 100, 6700 AC Wageningen, the Netherlands. CANOCO performs (partial) (detrended) (canonical) correspondence analysis, principal components analysis and redundancy analysis. CANOCO is an extension of Cornell Ecology program DECORANA (Hill,1979) For explanation of the input/output see the manual or Ter Braak, C.J.F. (1995) Ordination. Chapter 5 in: Data Analysis in Community and Landscape Ecology (Jongman, R.H.G., Ter Braak, C.J.F. and Van Tongeren, O.F.R., Eds) Cambridge University Press, Cambridge, UK, 91-173 pp. *** Type of analysis *** Model Gradient analysis indirect direct hybrid linear 1=PCA 2= RDA 3 unimodal 4= CA 5= CCA 6 ,, 7=DCA 8=DCCA 9 10=non-standard analysis Type analysis number Answer = 2 *** Data files *** Species data : mortalit.dta Covariable data : explanat.dta Environmental data : explanat.dta Initialization file: Forward selection of envi. variables = 0 Scaling of ordination scores = 2 Diagnostics = 1 File : mortalit.dta Title : Smr's (standardized mortality ratios) of 13 causes of death of males Format : (1X,I5,(T10,14F5.2)) No. of couplets of species number and abundance per line : 0 No samples omitted Number of samples 156 Number of species 11 Number of occurrences 1716 File : explanat.dta Title : explanatory variables: Period, SES in period, URB and CAT for mortality data Format : (I4,4F2.0,3F8.0) No. of covariables : 7 *** Interaction terms *** Variable 8 = variable 6 * variable 1 Variable 9 = variable 6 * variable 2 Variable 10 = variable 6 * variable 3 Variable 11 = variable 6 * variable 4 Variable 12 = variable 7 * variable 1 Variable 13 = variable 7 * variable 2 Variable 14 = variable 7 * variable 3 Variable 15 = variable 7 * variable 4 ****************************************************************************** Names of covariables ****************************************************************************** P2 P3 P4 P1 URB*P2 URB*P3 URB*P4 URB*P1 CAT*P2 CAT*P3 CAT*P4 CAT*P1 ****************************************************************************** File : explanat.dta Title : explanatory variables: Period, SES in period, URB and CAT for mortality data Format : (I4,4F2.0,3F8.0) No. of environmental variables : 7 *** Interaction terms *** Variable 8 = variable 5 * variable 1 Variable 9 = variable 5 * variable 2 Variable 10 = variable 5 * variable 3 Variable 11 = variable 5 * variable 4 ln(Ay+B)-transformation of species data A = 1.000 B = .000 No species-weights specified No sample-weights specified Centring/standardization by species = 4 Centring/standardization by samples = 0 No. of active samples: 156 No. of passive samples: 0 No. of active species: 11 Total sum of squares in species data = 171.662 Total standard deviation in species data TAU = .316285 Covariable P1 is linearly dependent, hence ignored ****** Check on influence in covariable/environment data ****** The following sample(s) have extreme values Sample Environmental Covariable + Environment space variable Influence influence influence 1 11 6.5x 8 11 21.0x 19 11 6.0x 20 11 6.9x 24 11 19.4x 40 8 6.5x 47 8 21.0x 58 8 6.0x 59 8 6.9x 63 8 19.4x 79 9 6.5x 86 9 21.0x 97 9 6.0x 98 9 6.9x 102 9 19.4x 118 10 6.5x 125 10 21.0x 136 10 6.0x 137 10 6.9x 141 10 19.4x ****** End of check ****** Weights for species after weighting by their error variance 1.26 .51 2.26 .45 .42 2.26 .69 .60 .56 1.33 .66 1 **** Correlation matrix **** SPEC AX1 1.0000 SPEC AX2 .0562 1.0000 SPEC AX3 -.0881 .0155 1.0000 SPEC AX4 .0814 -.0746 -.0986 1.0000 ENVI AX1 .7651 .0000 .0001 .0000 1.0000 ENVI AX2 .0000 .6583 .0000 .0000 .0000 1.0000 ENVI AX3 .0000 .0000 .2505 .0000 .0000 .0000 1.0000 ENVI AX4 .0000 .0000 .0000 .1755 .0000 .0000 .0000 1.0000 SES*P2 -.4167 .0558 -.1762 .0789 -.5446 .0847 -.7031 .4494 SES*P3 -.3491 -.3510 -.0389 -.1220 -.4563 -.5331 -.1552 -.6953 SES*P4 -.2248 -.3978 .1259 .0955 -.2938 -.6043 .5025 .5440 SES*P1 -.4892 .3858 .1199 -.0239 -.6394 .5860 .4786 -.1365 SPEC AX1 SPEC AX2 SPEC AX3 SPEC AX4 ENVI AX1 ENVI AX2 ENVI AX3 ENVI AX4 SES*P2 1.0000 SES*P3 .0000 1.0000 SES*P4 .0000 .0000 1.0000 SES*P1 .0000 .0000 .0000 1.0000 SES*P2 SES*P3 SES*P4 SES*P1 N name (weighted) mean stand. dev. inflation factor 1 SPEC AX1 .0000 1.3070 2 SPEC AX2 .0000 1.5190 3 SPEC AX3 .0000 3.9916 4 SPEC AX4 .0000 5.6973 5 ENVI AX1 .0000 1.0000 6 ENVI AX2 .0000 1.0000 7 ENVI AX3 .0000 1.0000 8 ENVI AX4 .0000 1.0000 8 SES*P2 .0000 .4936 1.4832 9 SES*P3 .0000 .4936 1.4832 10 SES*P4 .0000 .4936 1.4832 11 SES*P1 .0000 .4936 1.4832 **** Summary **** Axes 1 2 3 4 Total variance Eigenvalues : .025 .014 .002 .001 1.000 Species-environment correlations : .765 .658 .251 .176 Cumulative percentage variance of species data : 9.6 15.0 15.6 15.8 of species-environment relation: 60.9 94.8 98.6 100.0 Sum of all unconstrained eigenvalues .259 Sum of all canonical eigenvalues .041 The sum of all unconstrained eigenvalues is after fitting covariables Percentages are taken with respect to residual variances i.e. variances after fitting covariables *** MESSAGE *** The fit for species is additional to the fit due to covariables. With covariables, CANOCO cannot calculate residuals for samples.