User Tools

Site Tools


wiki:alignment1

This is an old revision of the document!


Intro Activities

  • Quiz
  • Homework commentary

Alignment

Let's take a step back and review our goals and strategy.

Our goal … to take sequenced samples from an RNA-seq experiment and process those sequences so we can determine the answers to biological questions.

Our strategy … to use a series of computational algorithms to align the reads to the genome, tabulate the number of reads associated with each gene, and use statistical methods to determine significantly differentially abundant transcripts.

Here is our strategy map…

Today, we're going to talk about aligning the reads to a reference genome. For today's purposes, we can focus on just one branch of this process here…

Building hisat2 genome indices

wiki/alignment1.1542286939.txt.gz · Last modified: 2018/11/15 06:02 by erin