read_bug: Read a bug's genefamily file
In biobakery/anpan: Quantifying Microbial Strain-Host Associations
read_bug R Documentation
Read a bug's genefamily file
Description
Read a bug's genefamily file
Usage
read_bug(bug_file, meta = NULL, remove_pattern = "_Abundance-RPKs")
Arguments
bug_file
path to a bug's genefamily file
meta
a data frame of metadata
remove_pattern
pattern to remove from the column names of the
genefamily file
Details
The input bug_file needs to be readable by data.table::fread()
If metadata is provided, the genefamily file is subset to only those samples
present in the sample_id column of the metadata.
Value
The genefamily file of the bug as a data.table in TALL format
biobakery/anpan documentation built on July 26, 2024, 11:19 p.m.
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| read_bug | R Documentation |
Read a bug's genefamily file
Description
Read a bug's genefamily file
Usage
read_bug(bug_file, meta = NULL, remove_pattern = "_Abundance-RPKs")
Arguments
bug_file |
path to a bug's genefamily file |
meta |
a data frame of metadata |
remove_pattern |
pattern to remove from the column names of the genefamily file |
Details
The input bug_file needs to be readable by data.table::fread()
If metadata is provided, the genefamily file is subset to only those samples present in the sample_id column of the metadata.
Value
The genefamily file of the bug as a data.table in TALL format
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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