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wdecoster / NanoPlot

Plotting scripts for long read sequencing data
http://nanoplot.bioinf.be
MIT License
432 stars 47 forks source link

BAM csi index #184

Closed JasonDFiedler closed 4 years ago

JasonDFiedler commented 4 years ago

Large chromosomes require a .csi BAM index (instead of default .bai), please update to allow for this option.

wdecoster commented 4 years ago

Hi Jason,

Thank you for the nicely formulated request.

I've never had to use a .csi index, and all BAM parsing is handled using Pysam and not in NanoPlot itself. Did you get an error with your bam file? Please add some information.

Cheers, Wouter

JasonDFiedler commented 4 years ago

If the BAM files are indexed beforehand (with csi), then there is no problem with plotting I should have checked that first. Thanks

wdecoster commented 4 years ago

You're most welcome.