One way to print a tree on multiple pages:
In R, use the pdf() function and set the height of the page to be very
large (say 110 inches if you want to print your tree on ten pages).
Print the tree to the pdf file. Call dev.off() to close the pdf file.
Then, when you print the tree with whatever you use, the printing
program will print on multiple pages. Open the tree first before
printing to preview to see if you have adequate space between taxa and
adjust the height as needed. The page breaks may not be great and each
page will have top and bottom margins, but will a scissors and tape, you
can get an okay large single picture.
I imagine, however, that a better way to visualize such a large tree
would be to employ some hierarchy. The first page could show the root
and enough of the tree to show a reasonable number of clades that can
seen easily on a single page. Then each clade could be represented by
its own rooted tree; if any single one is too big for a single page,
then recurse.
-Bret Larget
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