How to download BAM file from VM

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2.9 years ago

nhaus ▴ 280

Hey everybody,

I am currently trying to download a BAM file, which is located on a VM to which I am connected over ssh (I want to look at the reads with IGV).

Initially the download is reasonably fast (~7Mb/s), but after a while it goes down to (100kb/s) which means that the download takes over one day...

My question is, if you guys have also encountered a similar problem and if you have an idea how to circumvent this problem. I am using WinScp to download the file.

Any help is much appreciated!

Thanks

bam VM • 763 views

ADD COMMENT • link updated 10 weeks ago by Ram 39k • written 2.9 years ago by nhaus ▴ 280

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Entering edit mode

I want to look at the reads with IGV

You can do that directly from the VM itself. Install IGV there. You will need a X11 server locally to receive the X-windows data that will be projected back to your local machine from the VM. MobaXTerm is a free windows program that will provide that functionality.

ADD REPLY • link 2.9 years ago by GenoMax 129k

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