Tablet does not support BAM files with CSI index, only BAI index #3
Description
Resurrecting an old issue for the GitHub issue tracker,
The original BAM index format (BAI) has a fixed bin size system, and suffers from a maximum reference sequence length of 512Mbp making it unsuitable for large chromosomes (e.g. many plants, some marsupials).
The newer CSI indexing format supports longer references, and smaller bin sizes - which ought to help with ultra-high coverage in RNA sequencing or viral samples where currently Tablet can struggle and run out of RAM.
Testing with samtools 1.3, e.g. samtools index -c -m 5 example.bam, gives an index file example.bam.csi but Tablet does not recognise this.
Needs support in htslib samtools/htsjdk#447
The htslib issue is still open, so I assume that has not yet been implemented.