SAMSWiki/WebDocumentation/IntroDuction/PreProcessing: Difference between revisions
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** [[/XBLAST]] | ** [[/XBLAST]] | ||
* /RepeatMasker | * /RepeatMasker | ||
* / | * [[/Vector and Repeat masking]] | ||
** /CrossMatch | ** /CrossMatch | ||
** [[/Vmatch]] | ** [[/Vmatch]] | ||
Latest revision as of 07:17, 26 October 2011
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:
- /QualityClipping
- /PHRED
- /Trace2Dbest
- /VectorClipping
- /VecScreen
- /XBLAST
- /RepeatMasker
- /Vector and Repeat masking
- /CrossMatch
- /Vmatch