search for: infecti

Hey everyone, I'm working on a contour plot depicting asymptomatic prevalence at varying durations of infectiousness and force of infection. I've been able to work everything out except for this one - my legend title keeps getting cut off. Here's what I have: filled.contour(x=seq(2,30,length.out=nrow(asym_matrix)), y=seq(1,2,length.out=ncol(asym_matrix)), asym_matrix, color = function(x)rev(hea...

...data available in R. Obviously open source is the preferred way, but my understanding is that also closed source extensions can add value and may be welcome. I was therefore hoping that somebody has prior experience in this regard, or can shed further light on statement [1]. Is the R-C- interface infectious per se, even when data flows only into R, not vice versa? If its infectious, could just the very core of R be licensed additionally under a non-infectious license? Furthermore, can I avoid infecting my full software stack, for example by making only the package open source under a permissive li...

...y open source is the preferred way, but my understanding > is that also closed source extensions can add value and may be > welcome. > > I was therefore hoping that somebody has prior experience in this > regard, or can shed further light on statement [1]. Is the R-C- > interface infectious per se, even when data flows only into R, not > vice versa? If its infectious, could just the very core of R be > licensed additionally under a non-infectious license? > > Furthermore, can I avoid infecting my full software stack, for example > by making only the package open sou...

...without a license, but it is incumbent on the user to respect the license of the underlying library. -----Original Message----- From: R-devel [mailto:r-devel-bounces at r-project.org] On Behalf Of Joris Meys Sent: Friday, March 24, 2017 8:14 AM To: Marc Schwartz Cc: R-Devel Subject: Re: [Rd] non-infectious license for R package? My humble 2 nonlegal cents: There are multiple packages that make the link between R and proprietary software. One example is R2WinBUGS which connects to WinBUGS, but there are a lot more of these. All of these use essentially the same idea: - create the package under a...

...rstanding >>> is that also closed source extensions can add value and may be >>> welcome. >>> >>> I was therefore hoping that somebody has prior experience in this >>> regard, or can shed further light on statement [1]. Is the R-C- >>> interface infectious per se, even when data flows only into R, not >>> vice versa? If its infectious, could just the very core of R be >>> licensed additionally under a non-infectious license? >>> >>> Furthermore, can I avoid infecting my full software stack, for example >>&...

...the user to respect the > license of the underlying library. > > -----Original Message----- > From: R-devel [mailto:r-devel-bounces at r-project.org] On Behalf Of Joris > Meys > Sent: Friday, March 24, 2017 8:14 AM > To: Marc Schwartz > Cc: R-Devel > Subject: Re: [Rd] non-infectious license for R package? > > My humble 2 nonlegal cents: > > There are multiple packages that make the link between R and proprietary > software. One example is R2WinBUGS which connects to WinBUGS, but there are > a lot more of these. > > All of these use essentially the sa...

...d way, but my understanding > > is that also closed source extensions can add value and may be > > welcome. > > > > I was therefore hoping that somebody has prior experience in this > > regard, or can shed further light on statement [1]. Is the R-C- > > interface infectious per se, even when data flows only into R, not > > vice versa? If its infectious, could just the very core of R be > > licensed additionally under a non-infectious license? > > > > Furthermore, can I avoid infecting my full software stack, for example > > by making o...

...eferred way, but my understanding >> is that also closed source extensions can add value and may be >> welcome. >> >> I was therefore hoping that somebody has prior experience in this >> regard, or can shed further light on statement [1]. Is the R-C- >> interface infectious per se, even when data flows only into R, not >> vice versa? If its infectious, could just the very core of R be >> licensed additionally under a non-infectious license? >> >> Furthermore, can I avoid infecting my full software stack, for example >> by making only t...

...+rexp(1,h0) while (tt>=target) { xmat[i,]=x i=i+1 target=target+dt if (i>n) return(ts(xmat,start=0,deltat=dt)) } j=sample(v,1,prob=h) #################error########### x=x+S[,j] } } #Set initial parameters susceptible = 199 infectious = 1 recovered = 0 total_pop = susceptible + infectious + recovered #Time to run simulation time = 1000 #Recovery rate r = 1/9 #Transmission rate B = 0.25 / total_pop ################Rates################ p0 = B * 0.6721747879762630000000 p1 = B * 0.0885920745659092000000 p2 = B * 0.04...

Hi, I have used DeSolve package for my ODE problem regarding infectious disease transmission and currently am trying to pass lots (roughly a thousand) of model parameters to the C compiled model (I have to use C compiled code instead of R code purely because of the speed). I can't go define it one by one as it gonna take ages to finish and also quite difficult...

...f efficient packages for the analysis of high-throughput data, including computational algorithms development and implementation of creative solutions for large volume data management and processing. The candidate will have access to state of the art assay data generated by cutting edge projects in infectious disease and vaccine development, as well as a state of the art computing infrastructure including brand new CPU and GPU clusters Scope of Responsibilities: The scientific programmer will independently determine programmatic approaches to problems and develop algorithms and software programs...

...data snooping). See http://fluff.info/blog/arch/00000041.htm While I don't agree (granted, I can't really write C), it was interesting to read something from a very different perspective than I'm used to. Best regards, Gustaf _____ Department of Epidemiology, Swedish Institute for Infectious Disease Control work email: gustaf.rydevik at smi dot ki dot se skype:gustaf_rydevik

...ell-synergy.com/doi/abs/10.1111/j.1541-0420.2006.00703.x Please let me know of any problems with the package or have any comments. Thanks, Mike ****************************************************************** Michael P. Fay, PhD Mathematical Statistician National Institute of Allergy and Infectious Diseases Tel: 301-451-5124 Fax:301-480-0912 (U.S. postal mail address) 6700B Rockledge Drive MSC 7609 Bethesda, MD 20892-7609 (Overnight mail address) 6700-A Rockledge Drive, Room 5133 Bethesda, MD 20817 ***************************************************...

...http://www3.niaid.nih.gov/about/organization/dcr/BRB/staff/michael Please let me know of any problems or if you have any comments. Mike ****************************************************************** Michael P. Fay, PhD Mathematical Statistician National Institute of Allergy and Infectious Diseases Tel: 301-451-5124 Fax:301-480-0912 (U.S. postal mail address) 6700B Rockledge Drive MSC 7609 Bethesda, MD 20892-7609 (Overnight mail address) 6700-A Rockledge Drive, Room 5133 Bethesda, MD 20817 ***************************************************...

...esis should be rejected, then the confidence interval also implies that the null should be rejected. There is a vignette discussing this issue. Mike ****************************************************************** Michael P. Fay, PhD Mathematical Statistician National Institute of Allergy and Infectious Diseases Tel: 301-451-5124 Fax:301-480-0912 (U.S. postal mail address) 6700B Rockledge Drive MSC 7609 Bethesda, MD 20892-7609 (Overnight mail address) 6700-A Rockledge Drive, Room 5133 Bethesda, MD 20817 ***************************************************...

...http://www3.niaid.nih.gov/about/organization/dcr/BRB/staff/michael Please let me know of any problems or if you have any comments. Mike ****************************************************************** Michael P. Fay, PhD Mathematical Statistician National Institute of Allergy and Infectious Diseases Tel: 301-451-5124 Fax:301-480-0912 (U.S. postal mail address) 6700B Rockledge Drive MSC 7609 Bethesda, MD 20892-7609 (Overnight mail address) 6700-A Rockledge Drive, Room 5133 Bethesda, MD 20817 ***************************************************...

...ell-synergy.com/doi/abs/10.1111/j.1541-0420.2006.00703.x Please let me know of any problems with the package or have any comments. Thanks, Mike ****************************************************************** Michael P. Fay, PhD Mathematical Statistician National Institute of Allergy and Infectious Diseases Tel: 301-451-5124 Fax:301-480-0912 (U.S. postal mail address) 6700B Rockledge Drive MSC 7609 Bethesda, MD 20892-7609 (Overnight mail address) 6700-A Rockledge Drive, Room 5133 Bethesda, MD 20817 ***************************************************...

...esis should be rejected, then the confidence interval also implies that the null should be rejected. There is a vignette discussing this issue. Mike ****************************************************************** Michael P. Fay, PhD Mathematical Statistician National Institute of Allergy and Infectious Diseases Tel: 301-451-5124 Fax:301-480-0912 (U.S. postal mail address) 6700B Rockledge Drive MSC 7609 Bethesda, MD 20892-7609 (Overnight mail address) 6700-A Rockledge Drive, Room 5133 Bethesda, MD 20817 ***************************************************...

...t; The event will take place on Saturday, March 28, 2009 at UCLA. Details on registration will be posted at <http://www.sc-asa.org/>www.sc-asa.org as they become available. Best regards, Madeline === Madeline Bauer, Ph.D. University of Southern California Keck School of Medicine (Infectious Diseases) IRD Room 620 (MC9520), 2020 Zonal Ave, Los Angeles 90033 (323) 226-2775 [Voice] (FAX by appointment ;-) mbauer@usc.edu [Fastest communication method] [[alternative HTML version deleted]]

...description attached. Best wishes, Simon ** UNIVERSITY OF CAMBRIDGE Research Associate In Viral Phylodynamics Start date: Immediately Limit of Tenure: 3 years This post is funded by an MRC Methodology Research Programme grant, entitled 'Combining epidemiological and phylogenetic models of infectious disease dynamics'. The successful applicant will develop state-of-the-art statistical models to link viral transmission with viral evolution, both within- and between-hosts, with the ultimate aim of inferring quantities such as population sizes and selection pressures on viral population...