SAMSWiki/WebDocumentation/IntroDuction/PreProcessing: Difference between revisions

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** [[/XBLAST]]  
** [[/XBLAST]]  
* /RepeatMasker
* /RepeatMasker
* /VectorandRepeatmasking
* [[/Vector and Repeat masking]]
** /CrossMatch
** /CrossMatch
** [[/Vmatch]]
** [[/Vmatch]]

Revision as of 09:29, 16 October 2006

The pre-processing part consists in several steps such as:

  • cutting low quality parts (usually beginning and end)
  • cutting or masking vector and adaptor sequences
  • masking repeats
  • masking low complexixity regions such as poly A tails
  • masking contaminating sequences:
    • bacterial DNA
    • yeast DNA
    • mitochondrial DNA
    • ribosomal DNA

Here are the subsections:

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