SAMSWiki/WebDocumentation/IntroDuction/PreProcessing: Difference between revisions
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** mitochondrial DNA | ** mitochondrial DNA | ||
** ribosomal DNA | ** ribosomal DNA | ||
Here are the subsections: | |||
* /QualityClipping | |||
** [[/PHRED]] | |||
** /Trace2Dbest | |||
* /VectorClipping | |||
** /VecScreen | |||
** [[/XBLAST]] | |||
* /RepeatMasker | |||
* /VectorandRepeatmasking | |||
** /CrossMatch | |||
** [[/Vmatch]] | |||
Revision as of 08:37, 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: