infer_feature_type: Guesses the type of feature identifiers from a character...
In facileverse/FacileData: A fluent API for accessing multi-assay high-throughput genomics data
View source: R/feature-types.R
infer_feature_type R Documentation
Guesses the type of feature identifiers from a character vector.
Description
We rely on meta-information about our data types than "usual", and its useful
to know what types of identifiers we are using for different assay. This
function tries to guess whether an identifier is an ensembl gene identifier,
entrez id, etc.
Usage
infer_feature_type(x, with_organism = FALSE, ...)
Arguments
x
a character vector of ids
Details
A two-column data.frame is returned for id_type and organism. Organism
is "unknown" for identifiers where there this can't be inferred (like Refseq).
If an identifier matches more than one id_type, the id_type is set to
"ambiguous". If the identifier doesn't match any guesses, then "unknown".
Value
data.frame with id (x) and id_type. If with_organism = TRUE,
a third organism column is added with a guess for the organism.
Examples
fids <- c("NC_000023", "ENSG00000101811", "ENSMUSG00000030088.2", "85007")
infer_feature_type(fids)
facileverse/FacileData documentation built on Feb. 24, 2024, 7:59 a.m.
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View source: R/feature-types.R
| infer_feature_type | R Documentation |
Guesses the type of feature identifiers from a character vector.
Description
We rely on meta-information about our data types than "usual", and its useful to know what types of identifiers we are using for different assay. This function tries to guess whether an identifier is an ensembl gene identifier, entrez id, etc.
Usage
infer_feature_type(x, with_organism = FALSE, ...)
Arguments
x |
a character vector of ids |
Details
A two-column data.frame is returned for id_type and organism. Organism is "unknown" for identifiers where there this can't be inferred (like Refseq).
If an identifier matches more than one id_type, the id_type is set to
"ambiguous". If the identifier doesn't match any guesses, then "unknown".
Value
data.frame with id (x) and id_type. If with_organism = TRUE,
a third organism column is added with a guess for the organism.
Examples
fids <- c("NC_000023", "ENSG00000101811", "ENSMUSG00000030088.2", "85007")
infer_feature_type(fids)
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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