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Workshop 14: R-mode MVA Murray Logan 06 Aug 2016 > # might want - PowerPoint PPT Presentation

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Workshop 14: R-mode MVA Murray Logan 06 Aug 2016 > # might want to put this in to make the vector arrows and text look nicer.. > geom_text (data=vectors, aes (y=RDA2,x=RDA1,label=Species, + hjust=0.5*(1- sign (RDA2)),vjust=0.5*(1- sign

  1. Workshop 14: R-mode MVA Murray Logan 06 Aug 2016

  2. > # might want to put this in to make the vector arrows and text look nicer.. > geom_text (data=vectors, aes (y=RDA2,x=RDA1,label=Species, + hjust=0.5*(1- sign (RDA2)),vjust=0.5*(1- sign (RDA1))), color="red", size=4) Error in eval(expr, envir, enclos): could not find function "geom_text"

  3. R-mode Sp1 Sp2 Sp3 Sp4 Site1 2 0 0 5 Site2 13 7 10 5 Site3 9 5 55 93 Site4 10 6 76 81 Site5 0 2 6 0

  4. Sp4 117.70 62.50 1477.85 2122.20 117.70 Sp2 Sp3 Sp4 Sp1 30.70 15.00 96.35 Sp2 > var (Y) 15.00 8.50 56.25 62.50 Sp3 96.35 56.25 1153.80 1477.85 Sp1 R-mode Sp1 Sp2 Sp3 Sp4 Site1 2 0 0 5 Site2 13 7 10 5 Site3 9 5 55 93 Site4 10 6 76 81 Site5 0 2 6 0 • Measures of association ◦ variance covariance matrix

  5. Sp4 0.4611202 0.4653475 0.9444347 1.0000000 > cor (Y) Sp3 0.5119379 0.5679993 1.0000000 0.9444347 Sp2 0.9285656 1.0000000 0.5679993 0.4653475 Sp1 1.0000000 0.9285656 0.5119379 0.4611202 Sp4 Sp3 Sp2 Sp1 R-mode Sp1 Sp2 Sp3 Sp4 Site1 2 0 0 5 Site2 13 7 10 5 Site3 9 5 55 93 Site4 10 6 76 81 Site5 0 2 6 0 • Measures of association ◦ correlation matrix

  6. Axis rotation - eigenanalysis 4 6 8 12 16 ● ● 26 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 22 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp1 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 18 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 14 ● ● ● ● ● ● ● ● 16 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 12 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp1 Sp2 Sp3 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp2 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 8 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 1 18.0 12.0 3.0 6 ● ● ● ● ● ● 4 ● ● 10 ● ● 2 23.0 10.0 4.0 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 8 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 6 Sp3 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 3 21.0 10.0 6.0 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 4 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 2 ● ● ● ● ● ● ● ● ● ● ● ● 0 4 18.0 13.0 4.0 ● ● 14 18 22 26 0 2 4 6 8 10 5 22.0 6.0 9.0 6 21.0 9.0 7.0 7 22.0 9.0 7.0 8 20.0 11.0 1.0 9 21.0 9.0 5.0 10 17.0 10.0 5.0

  7. Axes rotation - eigenanalysis ● ● ● ● ● ● ● ● ● ● ● ●● ● ● ● 10 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 8 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 6 ● ● ● ● ● ● ●● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp3 ● ● ● ● ● ● ● ● ● ● ● ● ● 4 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp1 ● ● ● ● ● ● 50 ● ● 2 40 ● ● ● ● 30 ● ● 0 20 10 −2 0 0 5 10 15 20 Sp2

  8. Axes rotation - eigenanalysis Sp3 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp1 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp2 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ●

  9. Axes rotation - eigenanalysis Sp3 Axis 1 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp1 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Sp2 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ●

  10. Axes rotation - eigenanalysis Axis 1 Axis 2 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ●● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ●

  11. Axes rotation - eigenanalysis Axis 1 Axis 2 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● Axis 3 ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ●● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ●

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