Difference between revisions of "ChIPMunk (analysis)"

Revision as of 11:14, 31 May 2013

This analysis allows you to create motifs from Chip-Seq data.

It identifies the motif with the maximum Discrete Information Content in a set of DNA sequences.

Input sequences – Collection containing input reads.
Start length – Start length of the matrix
Stop length – Stop length of the matrix
Number of threads (expert) – Number of concurrent threads when processing
Step limit (expert) – Step limit
Try limit (expert) – Try limit
GC percent (expert) – Fraction of GC nucleotides (0..1), set to -1 for auto
ZOOPS factor (expert) – Zero-or-one-occurence-per-sequence factor
Motif shape (expert) – Motif shape
Use peak profiles (expert) – Whether to use peak profiles (if available)
Output matrix library – Path to the matrix library to put matrix into (will be created if not specified)
Matrix name – Name of created matrix

@@ Line 3: / Line 3: @@
 ;Provider
 :[[Autosome.Ru]]
+;Class
+:{{Class|biouml.plugins.chipmunk.ChipMunkAnalysis}}
 ;Plugin
 :[[Biouml.plugins.chipmunk (plugin)|biouml.plugins.chipmunk (ChIPMunk plugin)]]