Monthly Archives: July 2012

How to tell when error bars correspond to a significant p-value

July 24, 2012
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How to tell when error bars correspond to a significant p-value

Introduction Belia, Fidler, Williams, and Cumming (2005) found that researchers in psychology, behavior neuroscience and medicine are really bad at interpreting when error bars signify that two means are significantly different (p = 0.05). What they did was to email a bunch of researchers and invite them to take a web-based test, and they got 473 usable responses. The test consisted of an interactive plot...

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get UCSC images for a list of regions in batch

July 24, 2012
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Here is my working R code for the task. It can be simplified as 3 lines.# example of controling individual track#theURL="http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm9&wgRna=hide&cpgIslandExt=pack&ensGene=hide&mrna=hide&intronEst=hi...

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The Failure of Asset Allocation – Bonds Are An Imperfect Hedge

July 24, 2012
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The Failure of Asset Allocation – Bonds Are An Imperfect Hedge

US investors were spoiled by US Treasuries which acted as a near perfect hedge to stocks during the 2008-2009 crisis.  However, in real crisis, bonds rarely offer any comfort, and asset allocation fails (see post Death Spiral of a Country and IMF ...

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What’s wrong with LOESS for palaeo data?

July 24, 2012
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What’s wrong with LOESS for palaeo data?

Locally weighted scatterplot smoothing (LOWESS) or local regression (LOESS) is widely used to highlight “signal” in variables from stratigraphic sequences. It is a user-friendly way of fitting a local model that derives its form from the data themselves rather than having … Continue reading →

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Williams designs with 5 products

July 24, 2012
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Williams designs with 5 products

In a previous post I created small Williams designs for an even number of products. This worked very well, also because the number of permutations could be restricted significantly due to symmetry. Unfortunately this does not work so well with an odd n...

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renaming data frame columns in lists

July 24, 2012
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renaming data frame columns in lists

Renaming the columns of data frames which are stored in lists of lists Renaming the columns of data frames which are stored in lists of lists OK, so the scenario is as follows: we have a...

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What’s wrong with LOESS for palaeo data?

July 24, 2012
By
What’s wrong with LOESS for palaeo data?

Locally weighted scatterplot smoothing (LOWESS) or local regression (LOESS) is widely used to highlight “signal” in variables from stratigraphic sequences. It is a user-friendly way of fitting a local model that derives its form from the data themselves rather than having to be specified a priori by the user. There are generally two things that a user has...

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RcppGSL 0.2.0

July 23, 2012
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Earlier today, a minor update / maintenance release of RcppGSL---our interface package between R and the GNU GSL using our Rcpp package for seamless R and C++ integration---arrived on on CRAN. It contains a number of minor changes to accomodate chan...

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Faster R in Hadoop: rmr 1.3 now available

July 23, 2012
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The RHadoop project continues the Big Data integration of R and Hadoop, with a new update to its rmr package. Version 1.3 of rmr improves the performance of map-reduce jobs for Hadoop written in R. New features include: An optional vectorized API for efficient R programming when dealing with small records. Fast C implementations for serialization and deserialization from...

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Deploy Rook Apps with rApache: Part I

July 23, 2012
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Since rApache 1.1.15 you’ve been able to deploy you Rook applications like so: # Run the Rook application named 'app'. On each request, the expression # 'Rook::Server$call(app)' is evaluated in an environment populated by # rookapp.R. 'app' is expected to be found in that environment. <Location /test/RookApp> SetHandler r-handler ...

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