Javier Quilez

Data science applied to genomics et al.

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Three pitfalls of plotting... and all in one plot!

Some weeks ago my mother proudly sent me this screenshot from Samsung Health, which reported the number of steps she had walked over a period of time. Based on the big medal-like badge and the increasing trend of the plot, my mother was doing great.

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Comment on GIGGLE, a search engine for large-scale integrated genome analysis

I just devoured the article presenting GIGGLE, a search engine for large-scale integrated genome analysis [1]. It has been the most exciting reading so far in 2018 and I bet the GIGGLE tool will be widely used by the end of the year. My arguments follow below (the order does not denote priority).

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G***** Maps

Google Maps as an analogy to read mapping.

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List of things that made my work much easier

[Last update: 2017-07-05]

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Understanding BEDTools `reldist`

I very often use BEDTools reldist to measure the co-occurrance of two lists of genomic features relative to the random expectation.

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Lessons learned from migrating software

The CRG cluster I use at work recently migrated from version 6.3 of Scientific Linux to version 7.2. Painful as it was re-installing most of the programs I used daily, the good side is that I learned some things in the process.

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Differential expression analysis (DEA) with Sleuth

I use Kallisto’s transcript abundances to perform DEA using Sleuth.

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Hello, world!

Akin to the first program with a programming language, this is my first post: Hello, world!.

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