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This wiki serves as the Wright Lab's introduction and reference for wet and dry lab protocols and tips. View the links below and check the sidebar for useful info.

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Lab guide

** read the lab guide here https://github.com/SIWLab/Lab_Info/wiki/Lab-guide

Computing 🖥️

• Read the Rules and Regulations page
• Using the servers: grandiflora, capsicum, ohta, and gustave info
• Git resources: How to use git & GitHub
• Code styleguides: Make sure your code is easy to read and understand
• Using vim and other text editors

outside resources

• File formats in bioinfo
• Basic linux commands
• linux top command output explained

Bioinformatic tools and pipelines 🔧

• Aligning RNA seq data with STAR
• Variant calling with freebayes
• Samtools, Picard, and GATK variant calling pipeline
• Aging LTR insertions

older tools - please consult more recent documentation before using

• Running barraCUDA- use bwa-mem2 instead
• Running hapCUT to obtain putative haplotype blocks

Lab Protocols 🧪

• Wetlab protocols: safety first! Make sure your WHMIS/EHS training is up-to-date
• Qiagen kit Rumex DNA extraction
• Sorbitol-CTAB Rumex DNA extraction

Facilities Information and Contacts ☎️

• ESC
• Growth facilities
• Lab
• EEB department

Lab calendar 📆

Where's Stephen? Calendar