Displaying 20 results from an estimated 5000 matches similar to: "Constructing a transition matrix"
2007 Sep 25
2
3d barplot in rgl
Is there anyway to plot a matrix using a 3d bar plot. Something like
bar3 in matlab?
The example in demo hist3d does a 3d barplot for binned data, but has
anyone tried something for a simple matrix with spaces betwen bars
and axis labels using matrix dimnames or 1,2,3?
stages<-letters[1:3]
A<-matrix(c(
0.21, 0.21,0.03,
0.55, 0.58, 0.09,
1.30, 1.35, 0.22), nrow=3, byrow=TRUE,
2007 Feb 06
2
abbreviate dataframe for Sweave output
I wanted to print the first and last rows of some dataframes in Sweave
using dots in columns to separate the two parts. Head and tail almost
work, but I have problems with factors and row names.
z<-data.frame(id=letters[1:26], x=sample(1:26,26))
rbind(head(z,3), ".", tail(z,1))
id x
1 a 18
2 b 8
3 c 14
4 <NA> .
26 z 10
Warning message:
invalid
2006 Jan 23
1
Sample rows in data frame by subsets
Hi,
I need to resample rows in a data frame by subsets
L3 <- LETTERS[1:3]
d <- data.frame(cbind(x=1, y=1:10), fac=sample(L3, 10, repl=TRUE))
x y fac
1 1 1 A
2 1 2 A
3 1 3 A
4 1 4 A
5 1 5 C
6 1 6 C
7 1 7 B
8 1 8 A
9 1 9 C
10 1 10 A
I have seen this used to sample rows with replacement
d[sample(nrow(d), replace=T), ]
x y fac
7 1 7 B
2
2007 Nov 14
1
reading tables from url
I'm trying to read some web tables directly into R. These are both
genome sequencing projects (eukaryotes and metagenomes) from NCBI and
look very similar; however, only the first one works.
http://www.ncbi.nlm.nih.gov/genomes/leuks.cgi
http://www.ncbi.nlm.nih.gov/genomes/lenvs.cgi
I added ?dump=selected to the end of the url string to get a tab-
delimited file (which is what happens
2006 Jun 18
2
analyze amino acid sequence (composition)of proteins
Dear R-helpers:
thank your for your attention.
i am a newer to R and i am doing some protein category classification based on
the amino acid sequence.while i have some questions urgently.
1. any packages for analysis amino acid sequence
2. given two sequences "AAA" and "BBB",how can i combine them into "AAABBB"
3. based on "AAABBB",how can i get some
2013 May 07
4
create unique ID for each group
Hey All,
I have a dataset(dat1) like this:
ObsNumber ID Weight
1 0001 12
2 0001 13
3 0001 14
4 0002 16
5 0002 17
And another dataset(dat2) like this:
ID Height
0001 3.2
0001 2.6
0001
2006 Jan 23
8
In which application areas is R used?
If anyone has a list of application areas where there is
extensive use of R, I'd like to hear of it. My current
short list is:
Bioinformatics
Epidemiology
Geophysics
Agriculture and crop science
John Maindonald
Mathematical Sciences Institute, Australian National University.
john.maindonald at anu.edu.au
2009 Apr 22
2
function output with for loop and if statement
Hello all, turns out i'm having a bad R week. I am at my wits end with a function that I am trying to write. When I run the lines of code outside of a function, I get the desired output. When I wrap the lines of code into a function it doesn't work as expected. Not sure what is going on here. I suspected that the syntax of the if statement with the for loop was the culprit, but when I
2017 Nov 01
1
Creating Tag
i want to tag categories to its menuname.
i have a csv containing menu item name and in other csv i have a column
containing some strings,
i want to pick that strings from categories and look into menu items if
any menu item containing that string i want to create a new column next to
menu item name flagged as 1 otherwise 0
and the only condition is once a menu item flagged as 1 i don't need
2010 Nov 08
1
R help: reorder columns in an xyplot
Hello. First post, though I have read scores. Mostly i can solve my
problems reading the archives, but I lack the vocabulary to ask this one
right. Any social faux pais, I apologize.
I am sure this is a very basic question and I am embarrassed to ask, but I
spent several hours scouring the archives and trying various suggestions,
but I am too new to get any of them to work.
I am trying to
2012 Oct 04
4
Creating vegetation distance groups from one column
Hi R listers,
I am trying to group distances of nests to the vegetation into classes that
are define by (0-5m, 6-10m, 11-15m, 16-20m, 21-25m, 26-30m, 31-35m, 36-40m,
41-45m, 46-50m, 51-55m, 56-60m). Each row is a nest and all the distances to
the vegetation is in a column.
In plyr, I have tried - below script but I think I am going about this the
wrong way and am not successful.
#Veg index
2017 Dec 13
1
overlay two histograms ggplot
Hi all,
How can I overlay these two histograms?
ggplot(gg, aes(gg$Alz, fill = gg$veg)) + geom_histogram(alpha = 0.2)
ggplot(tt, aes(tt$Cont, fill = tt$veg)) + geom_histogram(alpha = 0.2)
thanks for any help!
Elahe
2010 May 26
1
Fill a matrix using logical arguments?
Hello all,
I am going slightly mad trying to create a table for running
co-correspondence analysis.
What I have is seed bank and vegetation data, and my aim is to see if
the vegetation found in a site (containing several seed bank samples)
can predict the composition of a seed bank sample within that site. So
for this I need two tables with matching rows.
I have created an empty matrix,
2012 Jan 19
2
add1 GLM - Warning message, what does it mean?
Hi All, I am wondering if anyone can tell me what the warning message below
the model means?
J
add1(DTA.glm,~ Aeventexhumed + Veg + Berm + HTL + Estuary + Rayos)
Single term additions
Model:
cbind(MaxHatch, TotalEggs - MaxHatch) ~ Aeventexhumed + Veg +
Berm + HTL
Df Deviance AIC
<none> 488.86 4232.9
Estuary 1 454.96 4201.0
Rayos 3 258.80 4008.9
Warning
2012 Oct 05
3
Anova
Hi R-listers,
I am trying to do an ANOVA for the following scatterplot and received the
following error:
library(car)
scatterplot(HSuccess ~ Veg,
data = data.to.analyze,
xlab = "Vegetation border (m)",
ylab = "Hatching success (%)")
anova(HSuccess ~ Veg, data=data.to.analyze)
Error in UseMethod("anova") :
no applicable
2011 Feb 18
1
plot3d, color points by group
Hello
I've created a 3d scatterplot, and had no problems labeling the points.
However, I've been really struggling to change the color of the points based
on a factor (see 'group' below). Is such a thing possible?
My data look like this:
food group x y z
apple fruit 0.216 -0.112 -0.893
orange fruit 0.814 0.097 0.460
broccoli veg -0.239 0.240 -0.425
banana
2007 May 15
1
stacked barplot with positive and negatvie values
Hello I'm trying to create a barplot with a couple of stacked positive
values and with one negative value for each group.
example:
trees<-c(20,30,10)
shrubs<-c(12,23,9)
veg<-c(2,3,4)
soil<-c(-100,-123,-89)
example1<-t(cbind(trees,shrubs,veg))
barplot(example1)
#this works so far
#but now:
example2<-t(cbind(trees,shrubs,veg,soil))
barplot(example2)
This shows no more
2012 Jan 25
6
How do I compare 47 GLM models with 1 to 5 interactions and unique combinations?
Hi R-listers,
I have developed 47 GLM models with different combinations of interactions
from 1 variable to 5 variables. I have manually made each model separately
and put them into individual tables (organized by the number of variables)
showing the AIC score. I want to compare all of these models.
1) What is the best way to compare various models with unique combinations
and different number
2009 Aug 30
1
Stochastic (transition) matrices: how to determine distributions and variance?
(apologies for the cross-posting, and for this being a more general
stats question rather than a specific-to-R one. I assure you I will be
doing the actual analysis in R :)
I am trying to determine the distribution and variance for a classic
stochastic (transition) matrix problem such that:
let x(t) be an initial state vector consisting of counts of classes A, B
and C:
x(t) =
2009 Jun 02
1
getting elements out of list automatically
o <- (structure(list(sand.silt = structure(list(statistic =
structure(185, .Names = "W"),
parameter = NULL, p.value = 0.0478835773838087, null.value =
structure(0, .Names = "location shift"),
alternative = "two.sided", method = "Wilcoxon rank sum test with
continuity correction",
data.name = ".column by site"), .Names =