GATK really does not like alphabetically sorted references.

Does it make sense to rearrange genomes to be sorted in [chr1,chr2, chr3,...] 
order instead of [chr1,chr10,chr11,...] order before indexing?

Lots of tools care about sorting… are there any that must have alphabetical 
order and not numerical order?

Brad Langhorst<>

Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

To search Galaxy mailing lists use the unified search at:

Reply via email to