treeio: Phylogenetic data integration

  Guangchuang Yu   | MAY 17, 2018

Phylogenetic trees are commonly used to present evolutionary relationships of species. Newick is the de facto format in phylogenetic for representing tree(s). Nexus format incorporates Newick tree text with related information organized into separated units known as blocks. For the R community, we have ape and phylobase packages to import trees from Newick and Nexus formats. However, analysis results (tree + analysis findings) from widely used software packages in this field are not well supported.

Support for hOCR and Tesseract 4 in R

  Jeroen Ooms   | FEBRUARY 14, 2018

Earlier this month we released a new version of the tesseract package to CRAN. This package provides R bindings to Google’s open source optical character recognition (OCR) engine Tesseract. Two major new features are support for HOCR and support for the upcoming Tesseract 4. hOCR output Support for HOCR output was requested by one of our users on Github. The ocr() function gains a parameter HOCR which allows for returning results in hOCR format:

Exploratory Data Analysis of Ancient Texts with rperseus

  David Ranzolin   | DECEMBER 5, 2017

Introduction When I was in grad school at Emory, I had a favorite desk in the library. The desk wasn’t particularly cozy or private, but what it lacked in comfort it made up for in real estate. My books and I needed room to operate. Students of the ancient world require many tools, and when jumping between commentaries, lexicons, and interlinears, additional clutter is additional “friction”, i.e., lapses in thought due to frustration.

Magick 1.6: clipping, geometries, fonts, fuzz, and a bit of history

  Jeroen Ooms   | DECEMBER 5, 2017

This week magick 1.6 appeared on CRAN. This release is a big all-round maintenance update with lots of tweaks and improvements across the package. The NEWS file gives an overview of changes in this version. In this post we highlight some changes. library(magick) stopifnot(packageVersion('magick') >= 1.6) If you are new to magick, check out the vignette for a quick introduction. Perfect Graphics Rendering I have fixed a few small rendering imperfections in the graphics device.

Using Magick with RMarkdown and Shiny

  Jeroen Ooms   | NOVEMBER 7, 2017

This week magick 1.5 appeared on CRAN. The latest update adds support for using images in knitr documents and shiny apps. In this post we show how this nicely ties together a reproducible image workflow in R, from source image or plot directly into your report or application. library(magick) stopifnot(packageVersion('magick') >= 1.5) Also the magick intro vignette has been updated in this version to cover the latest features available in the package.

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