SAMSWiki/WebDocumentation/IntroDuction/PreProcessing

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