Hello, i'm new in this list, and new in genetics field too.
I'm reading a book Analysis of Phylogenetics and Evolution with R and in
the book i saw about the function query() of the package seqinr to search
databases about specific sequences of our interest.
#A got a list of some frog species:
If it helps
library(seqinr)
s - choosebank(genbank)
query(bb,SP=Rhinella rubescens AND K=16S RIBOSOMAL
RNA,s$socket,verbose=T)
I'm checking the arguments...
... and everything is OK up to now.
I'm checking the status of the socket connection...
... and everything is OK up to now.
I'm sending
Maybe check that the code of foo has not been altered with a line break from
the email (eg, by editing it with fix(foo)). If this is ok, try it with the
examples from the help page ?compar.gee. You may also check that:
GEE$W
prints a 2 by 2 matrix.
Best,
Emmanuel
-Original Message-
Hi Everyone~
We have just released a new version of OUwie (v.1.21), which is now available
on CRAN (and R-Forge). OUwie provides an implementation of a new set of
Ornstein-Uhlenbeck-based Hansen models that allow the strength of selection,
optimal trait value, and/or stochastic motion
Looks like this may be because your row names in your data frame have
spaces, while your tree tip labels do not.
Try:
rownames(example)-sub( ,,rownames(example))
example-example[tree$tip.label,]
Help?
- Liam
--
Liam J. Revell
University of Massachusetts Boston
web:
Hi Agus,
From what you have posted, it looks as though you have a white space between
the genus abbreviation and the species name in the row names for your csv but
not for the tree's tip labels. Try running the following after reading it in
but before attempting to match the names to the tips
Thanks a lot for your quick responses Liam and Graham,
I was warned I could have issues with spaces, but did not see these!
2012/5/9 Graham Slater gsla...@ucla.edu
Hi Agus,
From what you have posted, it looks as though you have a white space
between the genus abbreviation and the species
