createNucReadsFromNucMap
(Package: nucleoSim) :
Create a synthetic nucleosome reads from a synthetic nucleosome map
Generate a synthetic nucleosome map using a synthetic nucleosome map.
● Data Source:
BioConductor
● Keywords: internal
● Alias: createNucReadsFromNucMap
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nucleoSim-package
(Package: nucleoSim) :
nucleoSim: Generate synthetic nucleosome maps
This package can generate a synthetic map with reads covering the nucleosome regions as well as a synthetic map with forward and reverse reads emulating next-generation sequencing. The user has choice between three different distributions for the read positioning: Normal, Student and Uniform.
● Data Source:
BioConductor
● Keywords: package
● Alias: nucleoSim, nucleoSim-package
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plot.syntheticNucMap
(Package: nucleoSim) :
Generate a graph of a synthetic nucleosome map
Generate a graph for a list marked as an syntheticNucMap class
● Data Source:
BioConductor
● Keywords:
● Alias: plot.syntheticNucMap
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plot.syntheticNucReads
(Package: nucleoSim) :
Generate a graph of a synthetic nucleosome map containing forward and
Generate a graph for a list marked as an syntheticNucReads class
● Data Source:
BioConductor
● Keywords:
● Alias: plot.syntheticNucReads
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1 images
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syntheticNucMapFromDist
(Package: nucleoSim) :
Generate a synthetic nucleosome map containing complete sequences
Generate a synthetic nucleosome map, a map with complete sequences covering the nucleosome regions, using the distribution selected by the user. The distribution is used to assign the start position to the sequences associated with the nucleosomes. The user has choice between three different distributions: Normal, Student and Uniform.
● Data Source:
BioConductor
● Keywords:
● Alias: syntheticNucMapFromDist
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Validate that all values passed to the function are formated for the syntheticNucMapFromDist function.
● Data Source:
BioConductor
● Keywords: internal
● Alias: syntheticNucMapFromDistValidation
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syntheticNucReadsFromDist
(Package: nucleoSim) :
Generate a synthetic nucleosome map containing forward and
Generate a synthetic nucleosome map, a map with forward and reverses reads (paired-end reads) covering the nucleosome regions, using the distribution selected by the user. The distribution is used to assign the start position to the forward reads associated with the nucleosomes. The user has choice between three different distributions: Normal, Student and Uniform. The final map is composed of paired-end reads.
● Data Source:
BioConductor
● Keywords:
● Alias: syntheticNucReadsFromDist
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syntheticNucReadsFromMap
(Package: nucleoSim) :
Generate a synthetic nucleosome map containing forward and
Generate a synthetic nucleosome map using a synthetic nucleosome map.
● Data Source:
BioConductor
● Keywords:
● Alias: syntheticNucReadsFromMap
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syntheticNucReadsValidation
(Package: nucleoSim) :
Subsection of parameter validation for identical parameters between
Validate that identical values passed to both syntheticNucReadsFromMap and syntheticNucReadsFromDist functions are correctly formatted.
● Data Source:
BioConductor
● Keywords: internal
● Alias: syntheticNucReadsValidation
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