align_details: A universal parameter settings object for Rsubread alignment
In compbiomed/MetaScope: Tools and functions for preprocessing 16S and metagenomic sequencing microbiome data
align_details R Documentation
A universal parameter settings object for Rsubread alignment
Description
This object is a named vector of multiple options that can be chosen for
functions that involve alignment with Rsubread, namely align_target()
and filter_host(). Both functions take an object for the parameter
settings, which are provided by align_details by default, or
may be given by a user-created object containing the same information.
Usage
data(align_details)
Format
list
Details
The default options included in align_details are type = "dna",
maxMismatches = 3, nsubreads = 10, phredOffset = 33,
unique = FALSE, and nBestLocations = 16. Full descriptions of
these parameters can be read by accessing ?Rsubread::align.
Examples
data("align_details")
compbiomed/MetaScope documentation built on May 3, 2024, 6:43 a.m.
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| align_details | R Documentation |
A universal parameter settings object for Rsubread alignment
Description
This object is a named vector of multiple options that can be chosen for
functions that involve alignment with Rsubread, namely align_target()
and filter_host(). Both functions take an object for the parameter
settings, which are provided by align_details by default, or
may be given by a user-created object containing the same information.
Usage
data(align_details)
Format
list
Details
The default options included in align_details are type = "dna",
maxMismatches = 3, nsubreads = 10, phredOffset = 33,
unique = FALSE, and nBestLocations = 16. Full descriptions of
these parameters can be read by accessing ?Rsubread::align.
Examples
data("align_details")
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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