Visualizing huge alignment BAM files

[mavershang]

Hi there, this is not an issue but I'd like to get your thoughts: I have setup the local mirror browser and API (and file servers hosting track hub), what is the best way to visualize a local large BAM file? Does epigenome browser support BAM or CRAM?

Thanks

[lidaof]

Hi @mavershang nice to hear you setup all the things. The bam format is supported, it need to be indexed and the .bai file need be in the same folder of the .bam file on a http location. I think best way is to put both bam and index in a http folder, then use the URL to bam for submitting as a remote BAM track. CRAM not supported yet. Thanks.

[shangl02]

@lidaof Thanks for the explanation. Good to know it support BAM.