Révision 0303dbe8 doc/sphinx_doc/rref.rst
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Florent Chuffart |
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R: Compute the fuzzy nucs. |
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Compute the fuzzy nucs. |
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----------------------- |
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Description |
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~~~~~~~~~~~ |
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This function aggregate non common wp nucs for each strain and substract |
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common wp nucs. It does not take care about the size of the resulting |
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fuzzy regions. It will be take into account in the count read part og |
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the pipeline. |
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Usage |
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~~~~~ |
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:: |
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get_fuzzy(combi, roi, roi_index, strain_maps, common_nuc_results, |
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config = NULL) |
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Arguments |
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~~~~~~~~~ |
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``combi`` |
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The strain combination to consider. |
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``roi`` |
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The region of interest. |
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``roi_index`` |
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The region of interest index. |
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``strain_maps`` |
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Nuc maps. |
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``common_nuc_results`` |
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Common wp nuc maps |
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``config`` |
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GLOBAL config variable |
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Author(s) |
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~~~~~~~~~ |
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Florent Chuffart |
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R: Compute the list of SNEPs for a given set of marker, strain... |
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Compute the list of SNEPs for a given set of marker, strain combination and nuc form. |
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+---------------+---------------------------------------------------+ |
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| Author: | Florent Chuffart | |
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+---------------+---------------------------------------------------+ |
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| Version: | 2.3.30 |
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| Version: | 2.3.31 |
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+---------------+---------------------------------------------------+ |
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| License: | CeCILL | |
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+---------------+---------------------------------------------------+ |
| ... | ... | |
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Florent Chuffart |
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R: Remove wp nucs from common nucs list. |
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Remove wp nucs from common nucs list. |
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------------------------------------- |
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Description |
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~~~~~~~~~~~ |
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It is based on common wp nucs index on nucs and region. |
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Usage |
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~~~~~ |
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:: |
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remove_aligned_wp(strain_maps, roi_index, tmp_common_nucs, strain) |
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Arguments |
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~~~~~~~~~ |
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``strain_maps`` |
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Nuc maps. |
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``roi_index`` |
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The region of interest index. |
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``tmp_common_nucs`` |
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the list of wp nucs. |
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``strain`` |
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The strain to consider. |
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Author(s) |
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~~~~~~~~~ |
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Florent Chuffart |
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R: sign from strand |
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sign from strand |
Formats disponibles : Unified diff