Blog Archives

High incidence in Measles Data in Project Tycho

April 21, 2014
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High incidence in Measles Data in Project Tycho

In this third post on Measles data I want to have a look at some high incidence occasions. As described before, the data is from Project Tycho, which contains data from all weekly notifiable disease reports for the United States dating back to 1888. These data are freely available to anybody...

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Following open courseware

April 13, 2014
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I love massive open online courses such as provided on Coursera and edX. So I enrolled in the Data Analysis for Genomics course on edX. I am not alone there as seen from this posting on FreshBiostats.I was shocked when I took the Pre-Course R self-asse...

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Looking at Measles Data in Project Tycho, part II

April 6, 2014
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Looking at Measles Data in Project Tycho, part II

Continuing from last week, I will now look at incidence rates of measles in the US. To recap, Project Tycho contains data from all weekly notifiable disease reports for the United States dating back to 1888. These data are freely available to any...

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Looking at Measles Data in Project Tycho

March 30, 2014
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Looking at Measles Data in Project Tycho

Project Tycho includes data from all weekly notifiable disease reports for the United States dating back to 1888. These data are freely available to anybody interested. I wanted to play around with the data a bit, so I registered.MeaslesMeasles a...

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Distribution Kinetics in JAGS

March 23, 2014
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Distribution Kinetics in JAGS

Chapter 19 of Rowland and Tozer (Clinical pharmacokinetics and pharmacodynamics, 4th edition) has distribution kinetics. I am examining problem 3. It is fairly easy, especially since essentially all formulas are on the same page under 'key relationships'. The only difficulty is that the formulas are symmetrical in λ1, c1 and λ2, c2 and they are exchanged between chains. For this...

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PK calculations for infusion at constant rate

March 16, 2014
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PK calculations for infusion at constant rate

In this third PK posting I move to chapter 10, study problem 4 of Rowland and Tozer (Clinical pharmacokinetics and pharmacodynamics, 4th edition). In this problem one subject gets a 24 hours continuous dose. In many respects the Jags calculation is not very different from before, but the relation between parameters in the model and PK parameters is a...

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PK calculation of IV and oral dosing in JAGS

March 9, 2014
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PK calculation of IV and oral dosing in JAGS

I am examining IV and oral dosing of problem of Chapter 6, Question 6 or Roland and Tozer Rowland and Tozer (Clinical pharmacokinetics and pharmacodynamics, 4th edition) with Jags. In this problem one subject gets an IV and an oral dose.DataThe data lo...

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Simple Pharmacokinetics with Jags

March 2, 2014
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Simple Pharmacokinetics with Jags

In this post I want to analyze a first order pharmocokinetcs problem: the data of study problem 9, chapter 3 of Rowland and Tozer (Clinical pharmacokinetics and pharmacodynamics, 4th edition) with Jags. It is a surprising simple set of data, but still there is enough to play around with.Data, model and analysisThe data is simple enough. One subject's concentration...

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Unemployment revisited

February 23, 2014
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Unemployment revisited

Approximately a year ago I made a post graphing unemployment in Europe and other locations. I have always wanted to do this again, not because the R-code would be so interesting, but just because I wanted to see the plots. As time progressed I attempte...

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Bayesian analysis of sensory profiling data III

February 16, 2014
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Bayesian analysis of sensory profiling data III

Last week I extended my Bayesian model. So this week I wanted to test it with different data. There is one other data set with profiling data in R, french fries in the reshape package. 'This data was collected from a sensory experiment conducted at Iow...

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