vset.preprocess: vset.preprocess
In omicsCore/SEQprocess: SEQprocess : a modularized and customizable pipeline framework for NGS processing in R package.
Description
Usage
Arguments
Details
Description
Use the depth of the variants position to determine the presence or absence of the mutation.
Usage
1
vset.preprocess(Robject.dir, mut.cnt.cutoff)
Arguments
annot.dir
Output of annotation step (directory of .annovar files)
Robject.dir
Ouptut directory
mut.cnt.cutoff
Criterion of depth (default=8)
mc.cores
The number of cores to dedicate. Must be at least one(default=1), and parallelization requires at least two cores.
Details
vSet before preprocessing is simply denoted as 1 if there is a mutation and 0 otherwise. After the depth of the mutated position
is calculated, the variants position with a depth that does not meet a certain criterion is not included in the analysis.
omicsCore/SEQprocess documentation built on May 7, 2020, 4:18 a.m.
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Description Usage Arguments Details
Description
Use the depth of the variants position to determine the presence or absence of the mutation.
Usage
1 | vset.preprocess(Robject.dir, mut.cnt.cutoff)
|
Arguments
annot.dir |
Output of annotation step (directory of .annovar files) |
Robject.dir |
Ouptut directory |
mut.cnt.cutoff |
Criterion of depth (default=8) |
mc.cores |
The number of cores to dedicate. Must be at least one(default=1), and parallelization requires at least two cores. |
Details
vSet before preprocessing is simply denoted as 1 if there is a mutation and 0 otherwise. After the depth of the mutated position is calculated, the variants position with a depth that does not meet a certain criterion is not included in the analysis.
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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