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  • Change Chromosome Notation for VCF Element
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Changes chromosome notation for each variant from the input, VCF or other variation files.

Parameters in GUI

ParameterDescriptionDefault value
Replace prefixesInput the list of chromosome prefixes that you would like to replace. For example "NC_000". Separate different prefixes by semicolons. 
Replace byInput the prefix that should be set instead, for example "chr". 

Parameters in Workflow File

Type: rename-chromosome-in-variation

ParameterParameter in the GUIType
prefixes-to-replaceReplace prefixes


prefix-replace-withReplace bystring

Input/Output Ports

The element has 1 input ports:

Name in GUI: Input file URL

Name in Workflow File: in-file


Slot In GUISlot in Workflow FileType
Source URLurlstring

And 1 
output port:

Name in GUI: Output file URL

Name in Workflow File: out-file


Slot In GUISlot in Workflow FileType
Produced URLurlstring
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