set.chromosomes: Load gene annotation for eQTL input object
In josefin-werme/LAVA: Local Analysis of [co]Variant Association
set.chromosomes R Documentation
Load gene annotation for eQTL input object
Description
Load the eQTL gene annotation for the specified chromosomes into the gwas.input object. Previously loaded gene annotation is replaced
Usage
set.chromosomes(gwas.input, chromosomes)
Arguments
gwas.input
GWAS input object preprocessed using process.eqtl.input (object is modified by function).
chromosomes
Specifies which chromosomes to load the annotation data for (loading all chromosomes may be time-consuming).
Can be set to 'all' to load all chromosomes, 'auto' to load all autosomal chromosomes, or a vector of chromosome numbers (the X chromosome can be specified as 'X' or 23).
Value
No return value, the gwas.input argument is modified in place. The following fields are changed
eqtl.genes - list containing the names and mapped SNPs for all genes in the eQTL data set
current.chromosomes - list of currently loaded chromosomes
current.genes - vector of genes available for the currently loaded tissue
josefin-werme/LAVA documentation built on July 4, 2024, 8:11 p.m.
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| set.chromosomes | R Documentation |
Load gene annotation for eQTL input object
Description
Load the eQTL gene annotation for the specified chromosomes into the gwas.input object. Previously loaded gene annotation is replaced
Usage
set.chromosomes(gwas.input, chromosomes)
Arguments
gwas.input |
GWAS input object preprocessed using |
chromosomes |
Specifies which chromosomes to load the annotation data for (loading all chromosomes may be time-consuming). Can be set to 'all' to load all chromosomes, 'auto' to load all autosomal chromosomes, or a vector of chromosome numbers (the X chromosome can be specified as 'X' or 23). |
Value
No return value, the gwas.input argument is modified in place. The following fields are changed
eqtl.genes - list containing the names and mapped SNPs for all genes in the eQTL data set
current.chromosomes - list of currently loaded chromosomes
current.genes - vector of genes available for the currently loaded tissue
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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