extract_gene_locations: Clean up the gene location field from eupathdb derived gene...
In khughitt/EuPathDB: Provides access to pathogen annotation resources available on EuPathDB databases
View source: R/extract_gene_locations.R
extract_gene_locations R Documentation
Clean up the gene location field from eupathdb derived gene location data.
Description
The eupathdb encodes its location data for genes in a somewhat peculiar
format: chromosome:start..end(strand), but I would prefer to have these
snippets of information as separate columns so that I can do things like
trivially perform rpkm().
Usage
extract_gene_locations(annot_df, location_column = "annot_gene_location_text")
Arguments
annot_df
Data frame resulting from load_orgdb_annotations()
location_column
Name of the column to extract the start/end/length/etc from.
Value
Somewhat nicer data frame.
Author(s)
atb
khughitt/EuPathDB documentation built on Nov. 4, 2023, 4:19 a.m.
R Package Documentation
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View source: R/extract_gene_locations.R
| extract_gene_locations | R Documentation |
Clean up the gene location field from eupathdb derived gene location data.
Description
The eupathdb encodes its location data for genes in a somewhat peculiar format: chromosome:start..end(strand), but I would prefer to have these snippets of information as separate columns so that I can do things like trivially perform rpkm().
Usage
extract_gene_locations(annot_df, location_column = "annot_gene_location_text")
Arguments
annot_df |
Data frame resulting from load_orgdb_annotations() |
location_column |
Name of the column to extract the start/end/length/etc from. |
Value
Somewhat nicer data frame.
Author(s)
atb
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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