.list to specify bam/cram and index paths.

v0.1.4

• if a file ending with ".list" is given as an argument (instead of .bam, .cram), it can contain
  paths to the alignment files and optionally the indexes. e.g.

https://abc/path/to/aaa.bam https://abc/indexes/path/aaa.bam.bai
https://abc/path/to/bbb.bam https://abc/indexes/path/bbb.bam.bai

These can be space, comma, or tab-delimited.

here are the current best sites files for hg38:

sites.hg38.vcf.gz
sites.chr.hg38.vcf.gz (for hg38 VCFs with "chr" prefix)