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Replace chromosome names (version 0.1)

Tabular input dataset:

Columns on which to perform the replacement:

Mapping table:

Must contain 2 tab-separated columns

Comment character:

Lines starting with this character will be directly printed to the output file

What it does

Replace chromosome names in a tabular (e.g. VCF) dataset using a mapping table.

Chromosome mapping tables can be downloaded from: https://github.com/dpryan79/ChromosomeMappings/