Tag Archives: R

The “p” problem in R plots, or when a dot is a font in inkscape

My graphics/figure workflow generally involves plotting something in R, saving it as a pdf (+png if writing a report with Rmarkdown), followed by some manual editing with Inkscape. Inkscape is a free, as in speech and beer, vector graphics editor … Continue reading

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Nerd up your R

I probably spend most of my working day in an R terminal, or at least I start R often enough. Now I saw in a blog I follow a way to entertain and instruct in equal measure everytime that little … Continue reading

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Rcolorbrewer pallete

I am always looking for a good quality printout of the available palettes in the RColorBrewer package. I finally decided to take matters on my own hand and create a pdf for myself. Of course it is very easy:

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ChIP-seq coverage analysis

####### UPDATE ####### It has been a long time since I wrote this post, and in between a wonderfull set of tools for coverage calculation and visualization has been published: deepTools does metagene analysis, and much, much more in a … Continue reading

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BioPython musings

On my quest to improve my scripting skils I have just recently taken the Introduction to BioPython course at the VIB in Leuven. The course It was all very well organized and the Instructor,  Kristian Rother , was well prepared … Continue reading

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Calculating and plotting mapped reads – a simple R/shell script

As this is my first post I’ll start with something very simple I did recently. The problem is simple: “how many reads did does my deep-seq experiment have and how many were mapped to the genome?”. I am now dealing … Continue reading

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