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wiki:alignment1 [2018/11/15 08:55]
erin
wiki:alignment1 [2018/11/15 09:02] (current)
erin
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   * Sequencing doo dads   * Sequencing doo dads
   * Assignment Slides   * Assignment Slides
 +
 +
 +----
 +
  
 ====== Alignment ====== ====== Alignment ======
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 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... 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...
  
 +{{ :​wiki:​pipeline_for_this_course_2.jpg?​direct&​400 |}}
  
 ---- ----
  
-Dataset ​we will use:+====== Example Data ====== 
 + 
 +**The dataset ​we will use is:** 
 + 
 +RNA-seq-based transcriptomic and metabolomic analysis reveal stress responses and programmed cell death induced by acetic acid in Saccharomyces cerevisiae. 
 +Dong Y, Hu J, Fan L, and Chen Q. (2016) Scientific Reports. 7:4. DOI: [[https://​www.ncbi.nlm.nih.gov/​pubmed/​28209995|10.1038/​srep42659]]. 
 + 
 + 
 +{{ :​wiki:​dong_srep42659.pdf |}} 
 + 
 + 
 +Here is the structure of the data:
  
 +{{ :​wiki:​data_structure.jpg?​direct&​500 |}}
  
  
 [[wiki:​hisat2build|{{:​wiki:​slide2_arrow.png?​40|}}]][[wiki:​hisat2build|Building HISAT2 genome indices]] [[wiki:​hisat2build|{{:​wiki:​slide2_arrow.png?​40|}}]][[wiki:​hisat2build|Building HISAT2 genome indices]]
  
wiki/alignment1.1542297330.txt.gz · Last modified: 2018/11/15 08:55 by erin