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Uploading a file that I did awhile ago. #10

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Uploading a file that I did awhile ago. #10

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8 changes: 4 additions & 4 deletions R/exercise.R
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Original file line number Diff line number Diff line change
Expand Up @@ -13,14 +13,14 @@ GetTreeFromOpenTree_exercise <- function() {

# Replace the "__________" with appropriate arguments

anolis.id <- tnrs_match_names("__________")$ott_id
anolis.id <- tnrs_match_names("Anolis")$ott_id

# Now get Open Tree's current best estimate of the phylogeny for the group
# They call this the tree of life; we can get the subtree for just this group.
anolis.tree <- tol_subtree(ott_id=anolis.id)

# Let's plot the tree:
plot.phylo("__________", type="fan", cex=0.2)
plot.phylo("anolis.tree", type="fan", cex=0.2)

# It has a lot of polytomies, representing uncertainty. A maximally resolved
# tree (if rooted) will have one fewer internal nodes than terminal nodes:
Expand Down Expand Up @@ -49,7 +49,7 @@ GetTreeFromOpenTree_exercise <- function() {
# And let's get the tree from this study
# Look in rotl documentation for the right function
# Hint: get_study_trees() is close, but you don't know the tree.id
anolis.study1.tree1 <- get_______FUNCTION_FROM_rotl____(anolis.studies.ids)
anolis.study1.tree1 <- get_study(anolis.studies.ids)

# And plot it
plot.phylo(anolis.study1.tree1, type="fan", cex=0.2)
Expand All @@ -61,7 +61,7 @@ GetTreeFromOpenTree_exercise <- function() {
}



U1<-GetTreeFromOpenTree_exercise



Expand Down