Notice that we recommend '99', not '100'. However, for publication of results, 999 or more are recommended. In a preliminary analysis, 99 is probably a good choice. Number of permutations The number of times you want to randomize the Y variable under the null hypothesis. This is necessary in order for the program to extract the star tree that forms the additive component of the phylogenetic tree. In this case, you will need to indicate which object is the 'Rooting Object' in the popup menu. A phylogenetic (additive) tree: select 'Triple' (Lapointe and Legendre, 1992).A dendrogram (ultrametric tree): select 'Double' (Lapointe and Legendre, 1991).The rows and the columns of the original dependent distance matrix (Y) will be permuted at random in the manner of the Mantel test. A simple distance matrix (not a dendrogram or phylogenetic tree): select 'Matrix'.they are simply a list of n values measured at n stations. when your variables have no particular structure to them, e.g.to test multiple regression done on variables that do not meet the distributional assumptions of the standard parametric tests used in multiple regression, or else.to test the behavior of the permutation tests of significance against standard multiple regression software, all possible permutations being equally likely, or.The values of the dependent variable will be permuted totally at random. A vector of values, with no matrix-like (distance) structure embedded: select 'Vector'.Here, a fourth case (the simplest one) is added. The features of this window are as follows: Permutation method As discussed in Legendre, Lapointe and Casgrain (1994), there are three ways of permuting a distance matrix. The multiple regression window looks like this: The names of the variables will be different for your own data file. If you have opened more than one data window, the multiple regression will be carried out for the topmost data file. Choosing it will cause the 'Multiple regression' window to come to the front of the screen. When at least one data file has been read, the File menu's 'New analysis' item is enabled. The 68k and PPC versions will be multi-threaded if the Thread Manager is present. You can also get an extension for earlier systems. This requires the Thread Manager, part of System 7.5 and later. ![]() Starting with version alpha 2, the program is multi-threaded, allowing the user to run multiple, concurrent analyses and background tasks. You should at least make a visual check on your data to ensure it has been read correctly. Note The program has no way of knowing if your data file is corrupt. You can then be sure that the program read your data file correctly. After a short delay, your file should appear in its own scrollable and resizable window, to show you what the program has read. You can also drag your input file and drop it on the program's icon. From the 'File' menu, choose 'Open.' and select your input file (see below for the file's format). To start the program, double-click on the icon. ![]() However, it assumes that the user is familiar with the contents of the Legendre, Lapointe and Casgrain (1994) paper, or at least with the concepts of multiple regression. ![]() Hence the program's interface is as self-explanatory as possible, and has balloon help throughout. The calculation uses the binomial coefficient: $$ C_n^k = \binom $$Ĭombinations uses calculus of factorials (the exclamation mark: !).How to use the program Keeping with the philosophy of Macintosh programs, the author assumed that users do not like to read manuals.
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