Up: Component summary Function

GenomicVariantAnnotator

Queries the Database of Genomic Variants. The connection is established via the URLInput component. The input table must contain an ID column, and columns for chromosome and locus for each ID.

The Database of Genomic Variants is a curated catalogue of structural variation in the human genome, variation which includes SNPs, tandem repeats and copy number variants.

Version 2.0
Bundle microarray
Categories Annotation
Authors Riku Louhimo (Riku.Louhimo@Helsinki.FI)
Issue tracker View/Report issues
Source files component.xml function.scala
Usage Example with default values

Inputs

Name Type Mandatory Description
inputT CSV Mandatory Input file containing columns for chromosome and locus as specified in chrCol and locusCol parameters, respectively.

Outputs

Name Type Description
table CSV Results of the query.

Parameters

Name Type Default Description
chrCol string (no default) Column for the chromosome identifier in the input.
endCol string (no default) Column for the query locus end.
idCol string (no default) IDcolumn in inputT file.
startCol string (no default) Column for the query locus start.

Test cases

Test case Parameters IN
inputT
OUT
table
case1 properties inputT table

chrCol=chr,
idCol=ID,
startCol=locus,
endCol=locus


Generated 2018-12-12 07:42:06 by Anduril 2.0.0