CHGI Bioinformatics

This blog provides updates on happenings at the Bioinformatics Support Services of the University of Calgary's Cumming School of Medicine, Centre for Health Genomics and Informatics. This includes a mix of technical information of use to other bioinformaticians, and practical information about services for both bench researchers and clinicians. Opinions expressed here are solely my (Paul Gordon) own, and should not be construed as AHS or UofC policy.

January 30, 2020

Installing a local copy of NextStrain for nCov19 with Conda

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NextStrain is great software for visualizing the relationships between isolates of a virus. It is used for influenza, but also for othe...
1 comment:
December 13, 2019

Nanopore bacterial genome assemblies

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tl;dr You should be able to get 99.95%+ DNA genome assembly accuracy from an  Oxford Nanopore Technologies MinION device  using the combinat...
1 comment:
July 2, 2019

Hybrid PacBio + Illumina assembly: turning Unicycler on its head

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tl;dr  Unicycler is an amazing program that does a great job of assembling microbial genomes from short and long reads. In hybrid asse...
1 comment:
October 23, 2018

Graphing Kallisto RNASeq results: Pretty box plotting genes by experiment factor levels

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Assuming you have already run a bunch of sample with Kallisto against a relevant transcript database , and have the outputs in fol...
February 8, 2018

Analyzing Bisulfite Treated Genome Data (differential methylation detection)

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tl;dr Bismark+DSS+ChIPpeakAnno+BioMart is good way to find differentially methylated regions of  genomes that have been bisulphite trea...
2 comments:
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Paul Gordon
Calgary, Alberta, Canada
Bioinformatics Manager at ACHRI
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