search for: biologists

I am a Biologist and a beginner, please help me to solve this: please anyone..its my homework and I dont have a clue abt R yet.. Write a function which does the following tasks: (a) Calculates minimum and maximum value of a given argument x. (b) If x is positive, some new vector gets the value of TRUE, and FALSE otherwise. (c) Creates a vector where the i:th and (i-1):th values of x are always

...r All, We have two computational biology positions to advertise - details below: Crispin ---- The Paterson Institute for Cancer Research (www.paterson.man.ac.uk<http://www.paterson.man.ac.uk/>), an Institute of The University of Manchester, seeks two (one senior, one junior) computational biologists to join the Applied Computational Biology and Bioinformatics Group (ACBBG). The Paterson Institute is one of Europe?s premier cancer research centres and is core-funded by Cancer Research UK, the world?s largest independent cancer research charity. Our juxtaposition to The Christie NHS Foundation T...

 Hi, What's the equivalent of "Save to File" from the R console File menu on an R routine? Just trying to capture the whole R console into a text file when my code fails. Felipe D. Carrillo Supervisory Fishery Biologist Department of the Interior US Fish & Wildlife Service California, USA http://www.fws.gov/redbluff/rbdd_jsmp.aspx [[alternative HTML version deleted]]

Hi, I hope you don't mind me posting this to the list: We are seeking a postdoctoral scientist to join the Applied Computational Biology and Bioinformatics group at the Paterson Institute for Cancer Research. The role will be to develop novel approaches for the analysis of high throughput genomic data, such as those arising from Affymetrix microarray experiments. We are an

Hi all: Can someone help me count the number of rows with values in colum "a" only. assume the name of my dataframe is "weekly" I was trying i<- nrows(weekly$a) i but returns 7 when it should be 4. Thanks a b c d 27.000 27.000 1.569 0.013 160.000 27.000 1.632 0.013 146.000 27.000 1.830 0.015 70.000 27.000 2.475 0.019

Manuel: I changed your variable names from x to 'long' and y to 'lat' on the riqueza_out.csv file. The code below should do what you want. Also, since the legend title is kind of long, I broke it down into three lines so you can see more plot area. I am cc'ing the other groups so more people use it if needed. library(rgdal) library(ggplot2) library(sp) library(maptools)

Hi: I am using Sweave and texi2dvi to generate a LaTeX document but can't find the way to hide the graphics while the R chunks are being executed. I thought results=hide would do it but that't not the case. If I do: \begin{figure}[h] <<figA=true,echo=F,fig=T,results=hide>>= a < rnorm(1000) plot(a) @ \caption{Weekly estimates.} \label{figure:ggplot1} \end{figure} The

Hi- I'm a biologist trying to figure out the growth rate of salamanders in different ponds. I collected individuals from various populations at different dates, and using the size and date collected, I want to figure out the growth curve of each population. My question is: How do I fit my data to a Gompertz function in R? Thank you so much! Sarah -- View this message in context:

? Hi: I get?a couple of warnings? when trying to download gridExtra: install.packages("gridExtra",repos=http://R-Forge.R-project.org) ?Warning: unable to access index for repository http://R-Forge.R-project.org/bin/windows/contrib/2.10 Warning message: In getDependencies(pkgs, dependencies, available, lib) : ? package ?gridextra? is not available I would like to download the binary

Dear List I am using R with mcgv package to model spatial variation in density estimates of dorcas gazelle in Sinai. I have 59 points of data and 4 explanatory variables(distance from mountain edge, camel presence, Latitude & Longitude). I want to test the model fir via bootstraping. I have used the jacknife bootstraping but it have the limitation of allowing only 58 trials. I tried to use the

Dear all, I am a biologist. I have two sets of distance P(start1, end1) and Q(start2, end2). The distance will be like this. P ------------------------ Q ---------------------------------------- I want to know whether P falls closely to the right end or left end of Q. P and Q are of different lengths for each data point. There are more than 10000 pairs of P and Q. Is there any test or

Hi, I'm a biologist, so please forgive me if my question sounds absurd! I have 3 parameters x1, x2, x3 and a response variable y.The sample size is 75. I tried to do the following: mylm<-lm(y~ x1 + x2 + x3, data="mydata") but i can only get stats from anova for the first 2 variables. The third comes up as NA. The degrees of freedom for the third variable are 0. Is there

I am starting to use R for almost any sort of calculation that I need. I am a biologist that works in the states, and there is often a need to convert from standard units to metric units. Is there a package in R for this already? If not I believe that I am going to write some of the most often used in function form. My question is should I include this in my StreamMetabolism package. It is

Dear R Users, In the expresso function, which combination of these methods for data pre-processing (when using affymetrix oligo arrays) is the best: bgcorrect.metod = rma rma2 mas normalize.method = qspline quantiles loess pmcorrect.method = pmonly subtractmm mas summary.method = liwong avgdiff medianpolish mas There are many options within each method. I would appreciate a hint on the best

I have a data set similar to this: P1id Veg1 Veg2 AreaPoly2 P2ID 1 p p 1 1 1 p p 1.5 2 2 p p 2 3 2 p h 3.5 4 For each group of "Poly1id" records, I wish to output (subset) the record which has largest "AreaPoly2" value, but only if

I installed R-2.9.0 yesterday, and followed the instructions in the R for Windows FAQ, 2.8 What's the best way to upgrade? It reads "run update.packages(checkBuilt=TRUE, ask=FALSE) in the new R and then delete anything left of the old installation." I did this but it returned an error. It's the checkBuilt=TRUE which causes it, though I don't know why: leaving it out or

Dear list, I have a text file from a scanner that includes 20 lines of text (scanner settings) before it actually starts showing the readings in a tabular format (headings are ID, intensity, background and few others). I am a biologist with some experience using R and my question is if it is possible to read this file into an R workspace and store the actual readings in a dataframe,

Dear list fellows, I want to study time series and use R to analyse time series of fishing data from several species (landings and cpue) investigating the correlation between them and with environmental factors (water temperature, wind, etc.). Searching at Amazon I found three books with examples in R: Time Series Analysis: With Applications in R by Jonathan D. Cryer and Jonathan D. Cryer

Hi, I am looking for a R package to draw 3d plot. But not in a static way like scatterplot3d or stuff like that. I would like to make rotate the plot, to zoom/unzoom etc..., actually to render the graph 'dynamic'... (for the biologist and bioinformatician, a R package which permitts to reproduce what pdb viewer does). Does a Way exist to do something like that in R ? Thanks,

Hi, We're looking for a number of people to join our group (Applied Computational Biology and Bioinformatics -- ACBB) and applying state of the art techniques (see for example, xmap.picr.man.ac.uk) to integrate, analyse and interpret datasets arising from the latest generation of microarrays (including exon, SNP and tiling arrays), quantitative mass-spectrometry and next generation