From August, github removed the use of authentication for https when using git. If you had cloned repositories using https rather than ssh you will have issues with pulling and pushing to github. For documentation about how to change to using ssh to …

Using Conda on the server # Make conda available # latest version installed at time of post module load miniconda/Miniconda3_4.8.3 Conda environments Conda is a package manager that can make running software that requires specific versions of …

The main consideration is to make sure that the reference resource matches the genomic build of your VCF. i.e. make sure you are using GRCh37 resources for a GRCh37 aligned VCF, or GRCh38 resources for a GRCh38 aligned VCF. dbSNP A vcf from dbSNP can …

example.vcf.gz is a VCF file of three human subjects aligned to GRCh37 and varaint called following the GATK best practices that had been annotated with rsIDs from dbSNP v151 and further annotated using dbNSFP4.0a and snpEff so includes annotations …

Merrimanlab Remote Working VPN access Credentials to use are your email/webkiosk How to Install VPN: Download Cisco AnyConnect from here: https://www.otago.ac.nz/its/services/network/otago038027.html New process: …

Current training resources for the lab Novice/Intro: The Carpentries Software Capentry Shell R Git/Github SQL Data Carpentry Data analysis and visualisation in R Best practice spreadsheets for use later in R Custom made Merriman Lab R tutorial …

Orientation A (sort of) induction for new members to the lab to help them get up and running Things that need to be sorted out for physical access ID card loaded into door access system key (if applicable) Lab health and safety brief Dept health and …