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Exome or Whole Genome Sequencing?

This is one of the most discussed topics especially in Clinical Genomics! Affordability, accuracy, feasibility and of course time consumption - based on these factor mostly, which sequencing technology is more suitable for clinics? Whole Exome Sequencing or Whole Genome Sequencing? (WGS or WES, WGS vs WES) So here's my 2 cents on this discussion! When it comes to DNA sequencing there has always been a raging debate over the choice of Whole Genome Sequencing (WGS) or Whole Exome Sequencing (WXS) for routine use. Whole genome sequencing (WGS), as the name suggests is the process of obtaining the entire genome. In most cases however, this is far from practical and only 95-97% of the genome is covered because it is technically difficult to sequence certain regions of the genome (high GC content, large repeat regions, centromeres, telomeres, etc.) with existing technology. “It’s very fair to say the human genome was never fully sequenced,”  - Craig Venter “The human genome ha
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How to upgrade R version on Ubuntu?

So we all have spent some quality time googling for an easy way to upgrade our R installation to the latest version on Ubuntu! Else why would you be here?! right?!

 Here are some quick steps to upgrade your R to latest version! 

 R-installations are tied up to their Ubuntu versions and hence are connected to the Ubuntu Distribution name like Trusty Tahr or Precise Pangolin. The trick here is to send a message to the repository with your latest Ubuntu distribution name, so it will pick up the latest version and update whatever is the new one out! 

 Just follow these steps, (simply copy-paste these commands in sequence, it will work, fingers crossed!)  

 1. Get the Ubuntu distribution name matching your current Version of ubuntu 

distname=$(lsb_release -c -s) 

 2. Select the nearest CRAN mirror to you 

echo "deb http://mirrors.ebi.ac.uk/CRAN/bin/linux/ubuntu $distname/" | sudo tee -a /etc/apt/sources.list > /dev/null 

 3. Authenticate download from the CRAN mirror with key ID 

 sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys E084DAB9 

sudo add-apt-repository ppa:marutter/rdev 

4. Now, do the regular update, upgrade and latest version R-installation 

 sudo apt-get update 

 sudo apt-get upgrade 

 sudo apt-get install r-base r-base-dev 

The entire process take anything between 30 minutes to 90 minutes depending upon your bandwidth and signal! Good luck!

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