Difference between revisions of "DiChIPMunk (analysis)"
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| − | + | This analysis allows you to create di-nucleotide motifs from Chip-Seq data. | |
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| + | It identifies the motif with the maximum Discrete Information Content in a set of DNA sequences. | ||
==== Parameters: ==== | ==== Parameters: ==== | ||
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* '''Output matrix library''' – Path to the matrix library to put matrix into (will be created if not specified) | * '''Output matrix library''' – Path to the matrix library to put matrix into (will be created if not specified) | ||
* '''Matrix name''' – Name of created matrix | * '''Matrix name''' – Name of created matrix | ||
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| + | More about DiChIPMunk at: [http://autosome.ru/dichipmunk/ http://autosome.ru/smbsm/librettos/libretto_chipmunk/chipmunk_details.rhtml] | ||
[[Category:Analyses]] | [[Category:Analyses]] | ||
[[Category:ChIPMunk (analyses group)]] | [[Category:ChIPMunk (analyses group)]] | ||
[[Category:Autogenerated pages]] | [[Category:Autogenerated pages]] | ||
Revision as of 14:02, 16 April 2013
This analysis allows you to create di-nucleotide motifs from Chip-Seq data.
It identifies the motif with the maximum Discrete Information Content in a set of DNA sequences.
Parameters:
- Input sequences – Collection containing input reads.
- Start length – Start length of the matrix
- Stop length – Stop length of the matrix (less or equal than start length)
- Number of threads (expert) – Number of concurrent threads when processing
- Step limit (expert) – Step limit
- Try limit (expert) – Try limit
- Local background (expert) – If checked, local background estimation is used. Otherwise uniform background estimation is used
- 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
More about DiChIPMunk at: http://autosome.ru/smbsm/librettos/libretto_chipmunk/chipmunk_details.rhtml
