search for: muscl

...ot;1454699_at" "2.69e-10" "1.8654677" "LOC100047324///Sesn1" "1416926_at" "3.19e-10" "2.172342" "Trp53inp1" "1422557_s_at" "1.58e-09" "2.9569254" "Mt1" etc. using the following code: muscle = read.table(file="/Users/bob/Desktop/Muscle/musclesmall.txt", header = TRUE, colClasses = "character", fill = TRUE) upregulated_list = c() downregulated_list = c() nochange = c() p_thresh = 6.51e-06 x=1 while (x <= nrow(muscle)) { this_pval = muscle[x,"adj.P.Val&quot...

Hi everyone,  I am using bio3d package for some sequence analysis because of its nice integrated MUSCLE execution. However, I have been encountering some errors while I was running seqaln function, which calls for installed MUSCLE program. In my case, I stored the MUSCLE program on the desktop with pathway of "./Desktop/muscle/src/muscle". I had no problem running MUSCLE directly from term...

I would like to plot 3-dimensional data on a two-dimensional scatter-plot. Is there a way I can automatically modify the plot symbol (e.g. changing size or color) to indicate the value of a third variable? E.g. How can I plot weight vs. age and indicate the value of muscle mass for each value weight-age pair by making the plot point proportional to the subject's muscle mass? Thanks, John John David Sorkin M.D., Ph.D. Chief, Biostatistics and Informatics University of Maryland School of Medicine Division of Gerontology Baltimore VA Medical Center 10 North Green...

Hi all, a modified version of the OpenSSH client programs has been released on the Smart Sign Web Site http://smartsign.sourceforge.net that uses Muscle Card Edge technology. It directly generates an OpenSSH private key on to a JavaCard 2.1.1 compliant smart card (using CardEdge key generation facility) and uses it from the card itself. Private key can never get compromised after generation ! The code has been integrated into OpenSSH sources so...

I would appreciate help translating the following lme model to an lmer function. lme(lognrms ~ Group*Rotation*muscle*side*support*arms, random=~1|Subject/Stratum2/rep, data=Data) Many thanks Ross Darnell r.darnell at uq.edu.au

In S-Plus, I can obtain polynomial contrasts for an ordered factor with contr.poly(). The function also exists in R, however is limited to factors where the levels are equally spaced. In S-Plus, one can obtain the contrasts for a set of numeric values representing unequally spaced ordered factors. Has anyone implemented this in R? I see that the S-Plus function calls another function (poly.raw())

.../, and finally the static libraries are integrated into msa.so. The Makevars file looks as follows: PKG_LIBS=`${R_HOME}/bin${R_ARCH_BIN}/Rscript -e "if (Sys.info()['sysname'] == 'Darwin') cat('-Wl,-all_load ./libgc.a ./libClustalW.a ./libClustalOmega.a ./libMuscle.a') else cat('-Wl,--whole-archive ./libgc.a ./libClustalW.a ./libClustalOmega.a ./libMuscle.a -Wl,--no-whole-archive')"` PKG_CXXFLAGS=-I"./gc-7.2/include" -I"./Muscle/" -I"./ClustalW/src" -I"./ClustalOmega/src" .PH...

...the windscreen of Richard''s car. His bank balance was nearly empty and the paycheck was still a fortnight away. http://ongip.notlong.com Premature ejaculation, Free Methods of controlling premature ejaculation PC exercises, also known as Kegel exercises. strengthen the pubbocoxygennus muscle (PC muscle), a sling of muscle that surrounds your anus and prostate gland. http://daija.notlong.com --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "Ruby on Rails: Core" group. To post to this group, send...

...t we cannot execute svn commands against llvm-project any more: > $ svn diff -r 208457:208458 'http://llvm.org/svn/llvm-project' > svn: access to '/svn/llvm-project/!svn/vcc/default' forbidden > > Tanja, any idea what changed? > (Tanya, sorry for messing up the name, muscle memory go the better of me here...) > > Thanks! > /Manuel > > > On Sun, May 11, 2014 at 5:52 PM, Dan Liew <dan at su-root.co.uk> wrote: > >> > If llvm-admin is meant to be mailed in some circumstances, perhaps the >> > listinfo page should say somethi...

Hi, I have some data on the effect of cycle shape (categorical) and frequency (continuous) on the efficiency of muscle contraction. My minimum adequate model is: m15<-glm(efficiency~cycle.shape*freq, family=quasipoisson) However, I wish to know where significant differences lie between specific combinations of treatments. I guess I want an equivalent of a post hoc test following an ANOVA. Is there a wa...

...re: > >> $ svn diff -r 208457:208458 'http://llvm.org/svn/llvm-project' > >> svn: access to '/svn/llvm-project/!svn/vcc/default' forbidden > >> > >> Tanja, any idea what changed? > > > > > > (Tanya, sorry for messing up the name, muscle memory go the better of me > > here...) > > I'm still doing this with e.g. http://reviews.llvm.org/rL208786 Tanya (or can somebody pull in another llvm admin?) We need to be able to run svn diff for pretty much all stuff on phabricator. Can we whitelist it somehow? Thanks, /Manu...

...digits=3) set.seed(173) sex <- factor(sample(c("m","f"), 500, rep=TRUE)) age <- rnorm(500, 50, 5) treatment <- factor(sample(c("Drug","Placebo"), 500, rep=TRUE)) symp <- c('Headache','Stomach Ache','Hangnail', 'Muscle Ache','Depressed') symptom1 <- sample(symp, 500,TRUE) symptom2 <- sample(symp, 500,TRUE) symptom3 <- sample(symp, 500,TRUE) Symptoms <- mChoice(symptom1, symptom2, symptom3, label='Primary Symptoms') table (Symptoms) table(symptom1,symptom2) f <- summary(treatmen...

...ain mystified- This may be stupidity on my part but it may not be so simple. In brief, my problem is I'm not sure how to extract parameter values/effect sizes from a nonlinear regression model with a significant interaction term. My data sets are dose response curves (force and dose) for muscle that also have two treatments applied Treatment A (A- or A+) and Treatment B (B-/B+). A single muscle was used for each experiment - a full dose response curve and one treatment from the matrix A*B (A-/B-, A+/B-, A-/B+ and A+,B+). There are 8 replicates for each combination of treatments We fi...

...he code I am using is as follows. par(mar=c(3,8,2,2)) par(adj=.5) par(font=2) par(oma=c(3,3,3,3)) par(xpd=TRUE) Blot<-matrix(c(25.2995, 0.7625, 25.6135, 36.5770, 39.7085, 29.0730, 38.1240, 10.5205,45.3135), ncol=3, byrow=TRUE) colnames(Blot)<-c("Pancreas", "Liver", "Muscle") rownames(Blot)<-c("0 hour fast", "5 hour fast", "10 hour fast") blot<-as.table(Blot) barplot(blot,beside=TRUE, col=c('darkorchid1','darkorchid3', 'darkorchid4'), ylim=c(0,80), yaxp=c(0,80,8), font.lab=2, las=1, axes=FALSE,cex.l...

I'm wondering if anyone can give some basic advice about how to approach a specific task in R. I'm new to R but have used SAS for many years, and while I can muscle through a lot of the code details, I'm unsure of a few things. Specific questions: If I have to perform a set of actions on a group of files, should I use a loop (I feel like I've heard people say to avoid looping in R)? How to get means for "by" groups and subset a files bas...

...es from a nonlinear regression model with a significant interaction term. My data sets are multiple measurements of force response to an agonist with two superimposed treatments each having two levels. This is very similar to the Ludbrook example in Venables and Ripley. The experiment is that a muscle is exposed to an agonist and the force response is measured. The resulting data is fit to a logistic fit (a three parameter rather than the four parameter used by Ludbrook) . This is done for each combination of two factors (treatmentA and Treatment B) each having two levels (- and +). Each se...

Anyone working with/using it? One thing that's driving me nuts is that it keeps spitting garbage into the logs (card absent or mute!!!). I just tried editing /etc/init.d/pcscd - there's *no* way to pass parms from the config file - and set the logging level to --error, and it's still doing it. Clues for the poor, to shut it up? mark

I''d like to see tab completion introduced for the commands -- while the single-character aliases are nice, tab-completing is in my muscle memory, as I suspect it is in many others, too. I''ve written a very rudimentary completion script which merely completes the command name in Bash: http://gist.github.com/445941 What are your thoughts on this? Would it be possible to get it bundled with Rails? I''m not sure if th...

...ILM3", "ILM4") @Statistics $p.value (0.01, 0.002, 0.0004, 0.006) $fold.change (2, 4,3, 0.5) @Moreinfo $("HemoglobinA1", "Myosin1", "Myosin2", " HemoglobinB1") @Functions $Blood("X", "", "", "X") $Muscle("", "X", "X","") I have no idea how to make such a file. I have been reading about matrices, data.frames, S4-objects, but I don't know how to do it. Can anyone help me with this? Many thanks in advance! Kind regards, Inge Holtman

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