Changes

From Genome Analysis Wiki
Jump to: navigation, search

BamUtil: filter

129 bytes added, 15:30, 30 September 2010
no edit summary
:If either the reference or the read are 'N' or 'n', it is NOT a match or mismatch.
:It is a match if the reference and the read have the same base (both A/a, both C/c, both G/g, or both T/t). If they are different, non-'N', bases it is a mismatch.
 
'''What type of clip is used?'''
:When a read is clipped due to exceeding the mismatch threshold, a softclip is used (Cigar S).
'''What should the quality count as if the quality string is '*'?'''

Navigation menu