search for: histolog

Suppose I have a dataset contain three variants, looks like > head(dta) Sex tumorsize Histology time status 0 1.5 2 12.1000 0 1 1.8 1 38.4000 0 ..................... Sex: 1 for male; 0 for female., two levels Histology: 1 for SqCC; 2 for High risk AC; 3 for low risk AC, three...

...el? * How to generate the calibration plot using fit3? The article dose have a section discuss this, but no code is provided. Thank you! On Mon, Jan 15, 2018 at 9:23 PM, Therneau, Terry M., Ph.D. <therneau at mayo.edu<mailto:therneau at mayo.edu>> wrote: The model formula " ~ Histology" knows how to change your 3 level categorical variable into two 0/1 dummy variables for a regression matrix. The tt() call is a simple function, however, and ordinary multiplication and does not have those powers. In this case you need to do the setup by hand : create your own 0/1 dummy var...

...39;s are identical can be found by the R help example codes of CCH. I'm copying and pasting them. subcoh <- nwtco$in.subcohort selccoh <- with(nwtco, rel==1|subcoh==1) ccoh.data <- nwtco[selccoh,] ccoh.data$subcohort <- subcoh[selccoh] ## central-lab histology ccoh.data$histol <- factor(ccoh.data$histol,labels=c("FH","UH")) ## tumour stage ccoh.data$stage <- factor(ccoh.data$stage,labels=c("I","II","III","IV")) ccoh.data$age <- ccoh.data$age/12 # Age in years...

First time user, so sorry if I don't understand protocol.. Anyway, I have created a data frame consisting of pearson's R values at various x and y coordinates and then plotted this using filled.contour. My data is similar to fMRI data except that it is a surface map reconstructed from histological sections. I like the results but would like to know how contours were detected. Google search provides me various sources claiming the algorithm used is undocumented. For example: http://wipaed.wiso.uni-goettingen.de/~holdenb1/R/library/base/html/contour.html "Draws contour lines for the...

Hello, i'm a french student of medical oncology and i'm working on breast cancer. I have a variable with the histologic type of tumor wich is between 1 and 5. I use as.factor function to make some variable with level between 1 and 5. When i put it in the cox model i have only the level between 2 and 5. The level 1 doesn't appear. I think i have to change the number of level but i don't really know. Ple...

...nverting it to pdf using pdftex in miktex). Thanks, Mike Babyak Department of Psychiatry and Behavioral Science Duke University Medical Center ************************** Here's the code: library(Hmisc) library(survival) getHdata(pbc) pbc<-upData(pbc, moveUnits=TRUE, labels=c(stage='Histologic Stage\nLudwig Criteria')) kmsurv <- function(S, times) { f <- survfit.km(factor(rep(1,nrow(S))), S) tt <- c(0, f$time) ss <- c(1, f$surv) # add first point to survival curve approx(tt, ss, xout=times, method='constant', f=0)$y } describe.survival <- function(y) { km...

...t runs fine overnight, with no activity). I'm at the pulling-out-hair stage over this one. There's nothing enlightening in the logs that I can see, but I'll send them and my smb.conf if anyone thinks they might be informative. Danny. Computer Network Manager Department of Anatomy and Histology University of Sydney

...;100]", NA, "Tumor dimension", "(0,5]", "(5,10]", "(10,30]", NA, "Primary tumor", "[T1]", "[T2]", "[T3a]", "[T3b-T3c]", NA, "Histology", "[ClearCell]", "[Papill-Chromo]", "[Others]", NA, "Grading", "[G1]", "[G2]", "[G3]", "[G4]", NA, "n", NA, NA,...

...ester UK, the Cancer Research UK Manchester Institute is a centre for excellence in cancer research. We occupy state-of-the-art laboratories and provide exceptional core facilities including next generation sequencing, mass-spectrometry, advanced imaging, High Performance Computing, bioinformatics, histology, and flow cytometry. We are core-funded by Cancer Research UK (www.cancerresearchuk.org), the world?s largest cancer organisation, are an Institute of The University of Manchester (www.manchester.ac.uk), and are adjacent to The Christie NHS Foundation Trust (www.christie.nhs.uk), one of the larges...

Dear WizaRds, I am struggling with the use of twophase in package survey. My goal is to compute a simple example in two phase sampling: phase 1: I sample n1=1000 circuit boards and find 80 non functional phase 2: Given the n1=1000 sample I sample n2=100 and find 15 non functional. Let's say, phase 2 shows this result together with phase 1: ...................phase1........

...matics approaches to discover, validate and generate therapeutics against molecular targets in oncology. We have generated large populations of tumors that exhibit inter-tumor heterogeneity similar to that seen in human tumor populations. Each tumor has been characterized by microarray, array CGH, histology, key signaling pathways as well as sensitivity to a variety of cancer therapeutics, including AVEO's clinical stage drug candidates. This well-characterized tumor population model system enables the correlation of gene expression and DNA copy number with drug efficacy, providing an attractive...

----- begin included message In case cohort study, we can fit proportional hazard regression model to case-cohort data. In R, the function is cch() in Survival package Now I am working on case cohort analysis with time dependent covariates using cch() of "Survival" R package. I wonder if cch() provide this utility or not? The cch() manual does not say if time dependent covariate is

...research, from the molecular and cellular basis of cancer through to drug discovery, translational research and clinical trials. The Institute has outstanding laboratory facilities and exceptional core services, including next generation sequencing, microarrays, confocal microscopy, bioinformatics, histology and mass-spectrometry. We are situated in Manchester, England, a vibrant and dynamic city that is surrounded by beautiful countryside and has excellent transport links both nationally and internationally. ________________________________ This email is confidential and intended solely for the u......