Category: Sanger-QC

Sanger QC Project

The Tolls of Bridge Building: Part IV, Mysterious Malformations

   Sam Nicholls    3 Comments    Sanger-QC

Following a short hiatus on the sample un-improvement job which may or may not have been halted by vr-pipe inadvertently knocking over a storage node at the Sanger Institute, our 837 non-33 jobs burst back in to life only to fall at the final hurdle of the first pipeline of the vr-pipe workflow. Despite my […]


The Tolls of Bridge Building: Part III, Sample (Un)Improvement

   Sam Nicholls    One Comment    Sanger-QC

Previously, on Samposium: I finally had the 870 lanelets required for the sample improvement process. But in this post, I explain how my deep-seated paranoia in the quality of my data just wasn’t enough to prevent what happened next. I submitted my 870 bridged BAMs to vr-pipe, happy to essentially be rid of having to […]


The Tolls of Bridge Building: Part II, Construction

   Sam Nicholls    One Comment    Sanger-QC

Last time on Samposium, I gave a more detailed look at the project I’m working on and an overview of what has been done so far. We have 870 lanelets to pre-process and improve into samples. In this post, I explain how the project has turned into a dangerous construction site. While trying to anticipate […]


The Tolls of Bridge Building: Part I, Background

   Sam Nicholls    No Comments yet    Sanger-QC

I’m at the Sanger Institute for just another two weeks before the next stop of my Summer Research Tour and it’s about time I checked in. For those of you who still thought I was in Aberystwyth working on my tan1 I suggest you catch up with my previous post. The flagship part of my […]


Sanger Sequel

   Sam Nicholls    No Comments yet    Sanger-QC

In a change to scheduled programming, days after touching down from my holiday (which needs a post of its own) I moved1 to spend the next few weeks back at the Wellcome Trust Sanger Institute in Cambridgeshire. I interned here previously in 2012 and it’s still like working at a science-orientated Google thanks to the […]