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Getting Genetics Done

Getting Genetics Done (GGD) is a blog with tips, reviews, tutorials, and pointers to relevant literature in genetics and bioinformatics research.

http://www.gettinggeneticsdone.com/

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Getting Genetics Done | gettinggeneticsdone.com Reviews
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Getting Genetics Done (GGD) is a blog with tips, reviews, tutorials, and pointers to relevant literature in genetics and bioinformatics research.
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Getting Genetics Done | gettinggeneticsdone.com Reviews

https://gettinggeneticsdone.com

Getting Genetics Done (GGD) is a blog with tips, reviews, tutorials, and pointers to relevant literature in genetics and bioinformatics research.

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gettinggeneticsdone.com gettinggeneticsdone.com
1

Getting Genetics Done: April 2014

http://www.gettinggeneticsdone.com/2014_04_01_archive.html

Getting Things Done in Genetics and Bioinformatics Research. Tuesday, April 22, 2014. Russ Altman's Translational Bioinformatics Year in Review. Along with a link to his slide deck. To make accessing the papers a bit easier, here is a list of links. Lior Pachter's "Network Nonsense". Inconsistency in Large Pharmacogenomic Studies. Warfarin Dosing with Pharmacogenomics. Clinically Actionable Genotypes in Patients with Premptive Pharmacogenomic Testing. Genic Intolerance to Functional Variation. A Common R...

2

Getting Genetics Done: September 2014

http://www.gettinggeneticsdone.com/2014_09_01_archive.html

Getting Things Done in Genetics and Bioinformatics Research. Tuesday, September 16, 2014. R package to convert statistical analysis objects to tidy data frames. I talked a little bit about tidy data my recent post about dplyr. But you should really go check out Hadley’s paper on the subject. Bridges this gap by taking un-tidy output from model objects, which are not data frames, and returning them in a tidy data frame format. If you performed a linear model on the built-in. Function also works on other t...

3

Getting Genetics Done: August 2014

http://www.gettinggeneticsdone.com/2014_08_01_archive.html

Getting Things Done in Genetics and Bioinformatics Research. Wednesday, August 20, 2014. Do your "data janitor work" like a boss with dplyr. Data “janitor-work”. The New York Times recently ran a piece on wrangling and cleaning data:. 8220;For Big-Data Scientists, ‘Janitor Work’ Is Key Hurdle to Insights”. Whether you call it “janitor-work,” wrangling/munging. It’s an absolute myth that you can send an algorithm over raw data and have insights pop up…. But practically, because of the diversity of data, y...

4

Getting Genetics Done: R: single plot with two different y-axes

http://www.gettinggeneticsdone.com/2015/04/r-single-plot-with-two-different-y-axes.html

Getting Things Done in Genetics and Bioinformatics Research. Tuesday, April 21, 2015. R: single plot with two different y-axes. I forgot where I originally found the code to do this, but I recently had to dig it out again to remind myself how to draw two different. Axes on the same plot to show the values of two different features of the data. This is somewhat distinct from the typical use case of aesthetic mappings in ggplot2 where I want to have different lines/points/colors/etc. for the. Par(mar = c( 5.

5

Getting Genetics Done: July 2014

http://www.gettinggeneticsdone.com/2014_07_01_archive.html

Getting Things Done in Genetics and Bioinformatics Research. Monday, July 7, 2014. Introduction to R for Life Scientists: Course Materials. Last week I taught a three-hour introduction to R workshop for life scientists at UVA's Health Sciences Library. I broke the workshop into three sections:. In the first half hour or so I presented slides. That can easily be recompiled when data updates. We concluded with an analysis of RNA-seq data using the DESeq2 package. We started with a count matrix. Object, ran...

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brainchronicle.blogspot.com brainchronicle.blogspot.com

R Chronicle: February 2013

http://brainchronicle.blogspot.com/2013_02_01_archive.html

Sunday, February 24, 2013. Large correlation in parallel. A little improvement to the bigcor function proposed on Rmazing. To compute huge correlation matrix in R, I made the function work in parallel using all the CPU cores available on the machine. The code is here. Here is a benchmark of the 2 functions on my machine with 8 cores:. Links to this post. Location: Cambridge, UK. Subscribe to: Posts (Atom). Large correlation in parallel. View my complete profile. Simple theme. Theme images by chuwy.

brainchronicle.blogspot.com brainchronicle.blogspot.com

R Chronicle: September 2012

http://brainchronicle.blogspot.com/2012_09_01_archive.html

Friday, September 21, 2012. Religious restrictions index: how do countries compare? The Guardian DataBlog published yesterday an interesting article exploring graphically the religious intolerance across the world. The data are coming from a report published by Pew Research Center's Forum on Religion and Public Life. I like the philosophy DataBlog a lot, providing the raw data for everyone to look at. The data are composed of two data type:. The R code is the following:. Links to this post.

brainchronicle.blogspot.com brainchronicle.blogspot.com

R Chronicle: Computing an empirical pFDR in R

http://brainchronicle.blogspot.com/2012/12/computing-empirical-pfdr-in-r.html

Friday, December 21, 2012. Computing an empirical pFDR in R. The positive false discovery rate (pFDR) has become a classical procedure to test for false positive. It is one of my favourite because it rely on a re-sampling approach. I base my implementation on John Storey. PNAS paper and the technical report he published with Rob Tibshirani. While at Stanford [1-2] (I find the technical report much more didactic than the PNAS paper). PFDR = E[F/S S 0]. PFDR = FDR = E[F]/E[S]. The pFDR can be written as.

brainchronicle.blogspot.com brainchronicle.blogspot.com

R Chronicle: Air quality analysis from Beijing twitter feed.

http://brainchronicle.blogspot.com/2013/01/air-quality-analysis-from-beijing.html

Monday, January 14, 2013. Air quality analysis from Beijing twitter feed. As air pollution in Beijing reach new high [ NYT article. I re-ran the analysis I put online. A few months ago. From the NYT article:. Subscribe to: Post Comments (Atom). Air quality analysis from Beijing twitter feed. View my complete profile. Simple theme. Theme images by chuwy.

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Estudar Computação: Sorteio do livro "Python para desenvolvedores", da Editora Novatec

http://www.estudarcomputacao.com/2014/10/sorteio-do-livro-python-para.html

Blog sobre o estudo da Ciência da Computação, pra quem gosta de pesquisar e aprender por conta própria. Quinta-feira, 30 de outubro de 2014. Sorteio do livro "Python para desenvolvedores", da Editora Novatec. Lançado o livro Python para Desenvolvedores, um curso rápido e prático sobre o assunto. A Novatec traz mais um título de Python repleto de exemplos para desenvolvedores. O livro Python para Desenvolvedores. Lançado pela Novatec Editora, descreve os principais recursos da linguagem Python, focado em ...

estudarcomputacao.com estudarcomputacao.com

Estudar Computação: Startup americana propõe soluções para desenvolvedores

http://www.estudarcomputacao.com/2015/02/startup-americana-propoe-solucoes-para.html

Blog sobre o estudo da Ciência da Computação, pra quem gosta de pesquisar e aprender por conta própria. Quarta-feira, 4 de fevereiro de 2015. Startup americana propõe soluções para desenvolvedores. Com sede em Belo Horizonte, a Appbase promete melhorar o desempenho dos processos de desenvolvimento de aplicativos. Atualmente os fundadores da Appbase. Siddharth Kothari e Sagar Chandarana. Funcionando como uma interface de programação de aplicativos (API), a Appbase. Já que a ferramenta se encarrega de moni...

brainchronicle.blogspot.com brainchronicle.blogspot.com

R Chronicle: December 2012

http://brainchronicle.blogspot.com/2012_12_01_archive.html

Friday, December 21, 2012. Computing an empirical pFDR in R. The positive false discovery rate (pFDR) has become a classical procedure to test for false positive. It is one of my favourite because it rely on a re-sampling approach. I base my implementation on John Storey. PNAS paper and the technical report he published with Rob Tibshirani. While at Stanford [1-2] (I find the technical report much more didactic than the PNAS paper). PFDR = E[F/S S 0]. PFDR = FDR = E[F]/E[S]. The pFDR can be written as.

brainchronicle.blogspot.com brainchronicle.blogspot.com

R Chronicle: Religious restrictions index: how do countries compare?

http://brainchronicle.blogspot.com/2012/09/religious-restrictions-index-how-do.html

Friday, September 21, 2012. Religious restrictions index: how do countries compare? The Guardian DataBlog published yesterday an interesting article exploring graphically the religious intolerance across the world. The data are coming from a report published by Pew Research Center's Forum on Religion and Public Life. I like the philosophy DataBlog a lot, providing the raw data for everyone to look at. The data are composed of two data type:. The R code is the following:. Subscribe to: Post Comments (Atom).

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