search for: huelsenbeck

Displaying 20 results from an estimated 22 matches for "huelsenbeck".

identical function names from 2 packages
2011 May 19
5
identical function names from 2 packages
...e, how do I tell R to run one or the other? (Instead of having R automatically use the first- or last-loaded one, whichever it is. (Which is it, by the way.)) Cheers! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...
380x380 dataframe to list
2010 Jun 05
2
380x380 dataframe to list
...hout writing my own function. There must be a simple function for this, but I'm stumped -- reshape, dim, etc. don't seem to do it... Help appreciated! Thanks!! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200A Principles of Phylogenetics: Systematics http://ib.berkeley.edu/courses/ib200a/index.shtml Lab websit...
parse .ps files with R?
2012 Feb 19
1
parse .ps files with R?
...., I have a map in postscript format with lots of features, but I just want to extract the coastline and it's coordinates. Any help very much appreciated! Cheers! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...
weird error: Coercing LHS to a list
2010 Jun 19
1
weird error: Coercing LHS to a list
...;North America" : Coercing LHS to a list ...although it appears to work, I'd rather not have disturbing mysterious error messages (what's LHS?)... Cheers! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200A Principles of Phylogenetics: Systematics http://ib.berkeley.edu/courses/ib200a/index.shtml Lab websit...
tab characters
2009 Jan 29
2
tab characters
...cters as they should be displayed, rather than as e.g. \n or \t? e.g.: > x="\t" > x="\t" > x [1] "\t" > print(x) [1] "\t" -- ==================================================== Nicholas J. Matzke Ph.D. student, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Lab websites: http://ib.berkeley.edu/people/lab_detail.php?lab=54 http://fisher.berkeley.edu/cteg/hlab.html Dept. personal page: http://i...
extract all numbers from a string
2013 Jun 16
2
extract all numbers from a string
...10, and a negative, -313.1" How could I get R to just give me a list of numerics containing the numbers therein? Thanks very much to the regexp wizards! Cheers, Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...
last result
2009 Jan 23
3
last result
...e a hidden variable somewhere that stores the result, so that one doesn't have to re-run the analysis for an hour? E.g., x <- whatever_the_last_output_was Thanks! Nick -- ==================================================== Nicholas J. Matzke Ph.D. student, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Lab websites: http://ib.berkeley.edu/people/lab_detail.php?lab=54 http://fisher.berkeley.edu/cteg/hlab.html Dept. personal page: http://i...
convert "1", "10", and "100" to "0001", "0010", "0100" etc.
2010 Sep 10
8
convert "1", "10", and "100" to "0001", "0010", "0100" etc.
...filename0007 filename0008 filename0009 filename0010 filename0011 ...etc.. Basically I want to produce strings like "0010" without an elaborate hack. Thanks! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200A Principles of Phylogenetics: Systematics http://ib.berkeley.edu/courses/ib200a/index.shtml Lab websit...
histogram-like barplot? (or reverse?)
2010 Apr 03
2
histogram-like barplot? (or reverse?)
...a scatterplot to plot x,y data points, except with vertical bars instead of points. I've tried hacking hist() but so far without luck. Any help greatly appreciated! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Student, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200A Principles of Phylogenetics: Systematics http://ib.berkeley.edu/courses/ib200a/index.shtml Lab websit...
how to check if an attribute exists
2011 Feb 03
3
how to check if an attribute exists
...t;z") [1] TRUE > exists("z$a") [1] FALSE ======================= ...basically, I want something that returns TRUE if the $a exists in z... Thanks! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...
R console line-wrapping
2009 Sep 15
2
R console line-wrapping
...f I increase the window size. (I want to output some simple tables to screen for students in a computer lab course) I am running R2.9, i.e. R.app, in Mac OS X. Cheers! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Lab websites: http://ib.berkeley.edu/people/lab_detail.php?lab=54 http://fisher.berkeley.edu/cteg/hlab.html Dept. personal page: http://i...
how to check if a library is loaded, from a function
2011 Feb 01
2
how to check if a library is loaded, from a function
...just putting require(phangorn) into the sourced function doesn't do anything. This must be simple, but I can't figure it out! Any help appreciated... Cheers! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...
sorting matrix to match an ordered list
2009 Jan 27
2
sorting matrix to match an ordered list
...s & columns in alphabetical order, I want them in a pre-specified order I can get from the input file, but the above is an example of the conceptual issue) Thanks! Nick -- ==================================================== Nicholas J. Matzke Ph.D. student, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Lab websites: http://ib.berkeley.edu/people/lab_detail.php?lab=54 http://fisher.berkeley.edu/cteg/hlab.html Dept. personal page: http://i...
eval(expr) without printing to screen?
2009 Sep 19
3
eval(expr) without printing to screen?
...= "y1 = x$c[1]" eval(parse(text=print(expr))) Because the following doesn't work, even though it seems like it should: expr = "y = x$c[2]" eval(expr) -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Lab websites: http://ib.berkeley.edu/people/lab_detail.php?lab=54 http://fisher.berkeley.edu/cteg/hlab.html Dept. personal page: http://i...
Switch Enter and Return in R.app?
2010 Jul 26
0
Switch Enter and Return in R.app?
...pp to synonymize these two keys? All that moving over to the number pad is driving me nuts. Thanks so much!! Apologies if it is something obvious which I missed!! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200A Principles of Phylogenetics: Systematics http://ib.berkeley.edu/courses/ib200a/index.shtml Lab websit...
plist file?
2010 Nov 18
0
plist file?
...nd the file in which a property like this would be set: ======== <key>Enable line wrapping if TRUE</key> <string>YES</string> ======== Cheers! Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200A Principles of Phylogenetics: Systematics http://ib.berkeley.edu/courses/ib200a/index.shtml Lab websit...
limited number of graphs in Quartz window
2011 Mar 16
0
limited number of graphs in Quartz window
...d a maximum of about 15 plots, and then discards anything plotted before that. This is pretty annoying, does anyone know of way to change this default setting? Cheers, Nick -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...
How to check if R.app is running?
2013 Jan 20
1
How to check if R.app is running?
...-the-gui-or-from-command-line Which says to use: interactive() ...but that doesn't work. Interactive R is fine (e.g. starting R from Mac Terminal), only R.app is not. -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...
running multiple commands in one system() call
2009 Feb 23
1
running multiple commands in one system() call
...=== ...but if I do it this way, the sourcing of .bash_profile from the first system() call does not carry over to the 2nd system() call. Any help appreciated!! Cheers, Nick -- ==================================================== Nicholas J. Matzke Ph.D. student, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Lab websites: http://ib.berkeley.edu/people/lab_detail.php?lab=54 http://fisher.berkeley.edu/cteg/hlab.html Dept. personal page: http://i...
Installing rgeos on Mac OS X 10.4 (was Re: "package 'stringr' does not have a name space"
2011 Oct 25
0
Installing rgeos on Mac OS X 10.4 (was Re: "package 'stringr' does not have a name space"
...brary/Frameworks/R.framework/Resources/library/", : > installation of package > '/Users/nick/Desktop/downloads/rgeos' had non-zero exit status > > > -- ==================================================== Nicholas J. Matzke Ph.D. Candidate, Graduate Student Researcher Huelsenbeck Lab Center for Theoretical Evolutionary Genomics 4151 VLSB (Valley Life Sciences Building) Department of Integrative Biology University of California, Berkeley Graduate Student Instructor, IB200B Principles of Phylogenetics: Ecology and Evolution http://ib.berkeley.edu/courses/ib200b/ http://phylo...