Posts Tagged ‘ Bioinformatics ’

Now I’m R-Blogging

July 10, 2011
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Today a lot of great mails arrived at my inbox. In one of them I was reading I’ve just added your feed to the site. Where did this mail come from? The sender of the email was Tal Galili. He is a researcher in BioStatistics at the Tel Aviv University, very active around the internet.

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Mapping SNPs to Genes for GWAS Enrichment Analysis

June 30, 2011
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Mapping SNPs to Genes for GWAS Enrichment Analysis

There are several tools available for conducting a post-hoc analysis of GWAS data looking for enrichment of significant SNPs using literature or pathway based resources. Examples include GRAIL, ALLIGATOR, and WebGestalt among others (see SNPath R Pac...

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R progress indicators

June 18, 2011
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Complicated calculations usually take a lot of time. So how to know the progress status to estimate how much time the program still needs to finish?

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R package DOSE released

June 12, 2011
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Disease Ontology (DO) provides an open source ontology for the integration of biomedical data that is associated with human disease. DO analysis can lead to interesting discoveries that deserve further clinical investigation. DOSE was designed for semantic similarity measure and enrichment analysis. Read More: 619 Words Totally

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More Command-Line Text Munging Utilities

May 19, 2011
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More Command-Line Text Munging Utilities

In a previous post I linked to gcol as a quick and intuitive alternative to awk. I just stumbled across yet another set of handy text file manipulation utilities from the creators of the BEAGLE software for GWAS data imputation and analysis. In additio...

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More Command-Line Text Munging Utilities

May 19, 2011
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More Command-Line Text Munging Utilities

In a previous post I linked to gcol as a quick and intuitive alternative to awk. I just stumbled across yet another set of handy text file manipulation utilities from the creators of the BEAGLE software for GWAS data imputation and analysis. In additio...

Read more »

PLINK/SEQ for Analyzing Large-Scale Genome Sequencing Data

May 4, 2011
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PLINK/SEQ for Analyzing Large-Scale Genome Sequencing Data

PLINK/SEQ is an open source C/C++ library for analyzing large-scale genome sequencing data. The library can be accessed via the pseq command line tool, or through an R interface. The project is developed independently of PLINK but it's syntax will be f...

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PLINK/SEQ for Analyzing Large-Scale Genome Sequencing Data

May 4, 2011
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PLINK/SEQ is an open source C/C++ library for analyzing large-scale genome sequencing data. The library can be accessed via the pseq command line tool, or through an R interface. The project is developed independently of PLINK but it's syntax will be f...

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Monday Links: 23andMe, RStudio, PacBio+Galaxy, Data Science One-Liners, Post-Linkage RFA, SSH

April 11, 2011
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Monday Links: 23andMe, RStudio, PacBio+Galaxy, Data Science One-Liners, Post-Linkage RFA, SSH

Lately I haven't written as many full length posts as usual, but here's a quick roundup of a few links I've shared on Twitter (@genetics_blog) over the last week:First, 23andMe is having a big DNA Day Sale ($108) for the kit + 1 year of their personal ...

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Monday Links: 23andMe, RStudio, PacBio+Galaxy, Data Science One-Liners, Post-Linkage RFA, SSH

April 11, 2011
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Monday Links: 23andMe, RStudio, PacBio+Galaxy, Data Science One-Liners, Post-Linkage RFA, SSH

Lately I haven't written as many full length posts as usual, but here's a quick roundup of a few links I've shared on Twitter (@genetics_blog) over the last week:First, 23andMe is having a big DNA Day Sale ($108) for the kit + 1 year of their personal ...

Read more »