Difference between revisions of "IPS motif discovery (analysis)"

Revision as of 16:27, 4 April 2013

Discover motifs in the sequence set

Parameters:

• Input Sequences – Input Sequences
• Initial matrices – Frequecy matrices that will be used as initial approximation
• Search for sub motifs – Whether to search for sub motifs
• Max iterations – Maximum number of iterations
• Min number of sequences – Minimal number of sequences to make a matrix
• Window size – Size of window around binding site for calculation of local background
• Critical IPS threshold – Critical IPS threshold
• Output matrix collection – Collection where constructed matrices will be saved