Changes chromosome notation for each variant from the input, VCF or other variation files.
Parameters in GUI
Parameter | Description | Default value |
---|---|---|
Replace prefixes | Input the list of chromosome prefixes that you would like to replace. For example "NC_000". Separate different prefixes by semicolons. | |
Replace by | Input the prefix that should be set instead, for example "chr". |
Parameters in Workflow File
Type: rename-chromosome-in-variation
Parameter | Parameter in the GUI | Type |
---|---|---|
prefixes-to-replace | Replace prefixes | string |
prefix-replace-with | Replace by | string |
Input/Output Ports
The element has 1 input ports:
Name in GUI: Input file URL
Name in Workflow File: in-file
Slots:
Slot In GUI | Slot in Workflow File | Type |
---|---|---|
Source URL | url | string |
And 1 output port:
Name in GUI: Output file URL
Name in Workflow File: out-file
Slots:
Slot In GUI | Slot in Workflow File | Type |
---|---|---|
Produced URL | url | string |