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03-rnaseq.Rmd
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# RNA-seq Quantification {#rnaseq}
## Introduction to RNA-seq experiment
<iframe width="560" height="315" src="https://www.youtube.com/embed/q0mNPvOVxqc" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
## RNA quality control and experimental design
<iframe width="560" height="315" src="https://www.youtube.com/embed/7ECKDDaUyQE" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
## Alignment
<iframe width="560" height="315" src="https://www.youtube.com/embed/pRmtkbYSnEg" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
## RNA-seq QC
<iframe width="560" height="315" src="https://www.youtube.com/embed/aJhH3dSZt20" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
## RNA-seq expression index
<iframe width="560" height="315" src="https://www.youtube.com/embed/TTUrtCY2k-w?start=30" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
## RSEM and Salmon
<iframe width="560" height="315" src="https://www.youtube.com/embed/SQlTRr6oOjE" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
## RNA-seq read distribution
<iframe width="560" height="315" src="https://www.youtube.com/embed/aVcyJcxWUzQ" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
## Lab 2
### STAR tutorial
<iframe width="560" height="315" src="https://www.youtube.com/embed/1NEG1KBdIyQ" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
### RSeQC tutorial
<iframe width="560" height="315" src="https://www.youtube.com/embed/KzfXQuI70QM" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
### RSEM/Salmon Tutorial
<iframe width="560" height="315" src="https://www.youtube.com/embed/5Dqj_Y03Csw" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>