subset_bagel_by_counts: Creates a new bagel subsetted to only samples with enough...
In campbio/BAGEL: Novel Mutational Signature Analysis
Description
Usage
Arguments
Value
Examples
Description
Creates a new bagel subsetted to only samples with enough variants
Usage
1
subset_bagel_by_counts(bay, table_name, num_counts)
Arguments
bay
Input bagel
table_name
Name of table used for subsetting
num_counts
Minimum sum count value to drop samples
Value
Returns a new bagel object with sample annotations, count tables,
and variants subsetted to only contains samples with the specified minimum
number of counts (column sums) in the specified table
Examples
1
2
bay <- readRDS(system.file("testdata", "bagel_sbs96.rds", package = "BAGEL"))
subset_bagel_by_counts(bay, "SBS96", 20)
campbio/BAGEL documentation built on Oct. 6, 2020, 3:59 a.m.
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Description Usage Arguments Value Examples
Description
Creates a new bagel subsetted to only samples with enough variants
Usage
1 | subset_bagel_by_counts(bay, table_name, num_counts)
|
Arguments
bay |
Input bagel |
table_name |
Name of table used for subsetting |
num_counts |
Minimum sum count value to drop samples |
Value
Returns a new bagel object with sample annotations, count tables, and variants subsetted to only contains samples with the specified minimum number of counts (column sums) in the specified table
Examples
1 2 | bay <- readRDS(system.file("testdata", "bagel_sbs96.rds", package = "BAGEL"))
subset_bagel_by_counts(bay, "SBS96", 20)
|
R Package Documentation
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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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