Starting an analysis

[Felipe Pereira da Rocha]

Dear all,

I appreciate any support and I am sorry for posting very basic questions in the group!

Yesterday, I tried to start my analysis on BioGeoBEARS following the basic example given by Nick on the PhiloWiki website. However, I ran into problems already with the files I tried to import. I'm not sure what is wrong with them because they imported fine into R, but then won't work after that.

The plagiolepidini_tree.nwk is a dated, ultrametric, binary, rooted phylogeny that I pruned from a bigger tree.

The yca_asia.txt is a phylip-formatted file that I wrote on BBEdit following the instructions. This example has a space between the number of species and the number of areas, but I also tried it with a tab between them.

Both will give the following error when I try the command moref() in R:

Error in scan(file = fn, what = "character", sep = "\n") :
  'file' must be a character string or connection

Further, is there any complementary material that explains what the different functions in R do? Their names are quite descriptive already, but I wonder if there's another place where I can explore how I work with all this material outside of the example (e.g., how to change parameters, etc).

Thank you so much!!!

Best regards,

Felipe

[Felipe Pereira da Rocha]

Hello everyone, 

Can anyone help me with this, please?