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Note: this document is automatically generated from configuration objects in our source code. See Config guide for more info

Source file


can read "chromAliases" type files from UCSC or any tab separated file of refName aliases

RefNameAliasAdapter - Slots

slot: location

location: {
type: 'fileLocation',
defaultValue: {
uri: '/path/to/my/aliases.txt',
locationType: 'UriLocation',

slot: refNameColumn

by default, the "ref names that match the fasta" are assumed to be in the first column (0), change this variable if needed

refNameColumn: {
type: 'number',
defaultValue: 0,