Blog

 
 

1 April 2018

I like to use Travis CI with my R packages. I recently wrote a R package, limmbo2, that is a wrapper for the python module limmbo. I used the R package reticulate, from Rstudio. I struggled for about 3 hours to write a .travis.yml file for limmbo2. Finally, I found a viable solution. I’m writing this blog post in hopes that it might be useful to myself and others in the future.

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30 March 2018

I have posted to Github the R package limmbo2. limmbo2 is a R wrapper to the freely available python module limmbo. I mention my interest in limmbo in an earlier blog post, so I won’t repeat it here.

 
 
 

10 September 2017

Yesterday I read for the first time Joan Didion’s essay “On self-respect” in her 1968 collection of essays “Slouching towards Bethlehem”. “On self-respect” originally appeared in Vogue in 1961. Here is the text of the essay, as it appeared in 1961. Among the more powerful lines from the essay are the following: “Nonetheless, character — the willingness to accept responsibility for one’s own life — is the source from which self-respect springs.

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10 September 2017

I recently learned about the R package, pkgdown, an R package that provides functions that make it easy to build a website from an R package on Github. I decided to build a site for my package qtl2pleio. The site is here. It features a documentation page for each function in the package. Using pkgdown is extremely easy. devtools::install_github("r-lib/pkgdown") library(pkgdown) build_site() pkgdown is used by more than 1300 packages, according to its README file.

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16 August 2017

I recently applied for a peer review training program that the Genetics Society of America organizes. An advisor kindly agreed to write a recommendation for my application. In discussing the program application with him, he told me that most of what he knows about refereeing he learned from Don Knuth’s book, Mathematical Writing. I decided to find a copy of the book. The publisher, MAA, says that the book is out of print.

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