how to let GATK support Coordinate Sorted Index (CSI) format of bam file

Since samtools 1.0, csi indexing format of bam file is specifically used for any other organisms with long chromosomes ( > 536Mb). Could you help me figure out how to let GATK SplitNCigarReads support cis indexing file?

Thanks so much.

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by Sheila

Issue Number
213
State
closed
Last Updated
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Closed By
chandrans

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