Articles by Di Cook

Maintining the data frame fromat when indexing

April 7, 2021 | Di Cook

 Occasionally when indexing data frames the format is converted, leading to confusing consequences. As for instance, when indexing to select a single column the result is a 'numeric' or 'integer' vector. The following  demonstrates this :&nbs...
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Measuring effect size in ALDEx2

March 1, 2021 | Di Cook

I'm in the throes of submitting a paper on effect sizes in ALDEx2, and so I thought I would take a stab at a nice concise blog post to summarize and simplify. Effect sizes are standardized mean differences between groups, and are designed to conve...
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Measuring effect size in ALDEx2

March 1, 2021 | Di Cook

I'm in the throes of submitting a paper on effect sizes in ALDEx2, and so I thought I would take a stab at a nice concise blog post to summarize and simplify. Effect sizes are standardized mean differences between groups, and are designed to conve...
[Read more...]

Speeding up aldex.effect()

February 21, 2021 | Di Cook

 I've been optimizing various functions in ALDEx2 on Bioconductor to make it more efficient. One bottleneck has been the aldex.effect() function which calculates an effect size for the difference between distributions. I will write a separate... [Read more...]

New Book: "Computational Genomics with R"

February 10, 2021 | Di Cook

 It costs now 299$ now to sequence your genome [https://nebula.org/whole-genome-sequencing-dna-test/]. It is getting cheaper to generate genomic data and more of it is coming through. We can't see the same trend for the people who can analyze the ...
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New Book: "Computational Genomics with R"

February 10, 2021 | Di Cook

 It costs now 299$ now to sequence your genome [https://nebula.org/whole-genome-sequencing-dna-test/]. It is getting cheaper to generate genomic data and more of it is coming through. We can't see the same trend for the people who can analyze the ...
[Read more...]

Axis break in R for line plot

November 7, 2019 | Di Cook

Planning to draw a density line-plot with gapped (or broken) Y-axis in R, I initially tried out the plotrix package. However after facing a couple of problems, I ended up using the standard R graphics codes to draw the correct gapped line-plot.Here I w...
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Hack-at-it 2010

June 4, 2010 | Di Cook

Members of the team met for the second time in 2010, to work on a new interactive graphics canvas for R. The current stage of the project can be found at R-forge: qtinterfaces contains the new canvas, and plumbr contains the new mutable data frame stru... [Read more...]

Hack-at-it 2009

June 9, 2009 | Di Cook

The annual GGobi hack-at-it was held June 5-7 in Ames Iowa. The main directions of work areDevelopment of a new canvas for R supporting interactive and dynamic graphics. Michael is leading the effort on this. Higher level routines for supporting brushi... [Read more...]

Hack-at-it 2008

June 27, 2008 | Di Cook

The 2008 Hack-at-it was held June 22-23, just before Data Vis VI, in Bremen Germany.The main topics for the meeting were: Release of 2.1.7 Continued design of GGobi 3 [Read more...]

New material on the GGobi book web page

January 30, 2008 | Di Cook

The GGobi book is now available from Springer and Amazon, after quite a delay. Getting the figures printed correctly was difficult. Solutions to the exercises in the back of each chapter are available for instructors by emailing Springer.The movies on ... [Read more...]
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