Server to host bam files
0
0
Entering edit mode
3 months ago
vkkodali ★ 2.5k

I am looking for a free (or relatively inexpensive) public server to host a few bam files that I would like to view in an online genome browser. I don't expect these bam files to be big so storage space is not much of a concern.

I have seen this note by the folks at UCSC Genome Browser. I could not get CyVerse working. FigShare is not really an option for me as I expect these files to change. Finally, GitHub was an option but I could not figure out how, for a bam file, the browser can find the path for the index.

Is there a public server that you use for something like this?

RNA-Seq alignment bam • 176 views
ADD COMMENT
0
Entering edit mode

Depending on how big your BAM files are could you not use AWS/Google compute to host the files. You may be able to use a free VM but will need to pay for storage.

ADD REPLY
0
Entering edit mode

That's what I was thinking too... I don't expect my files to be big (100Mb at most) . Based on Google's bucket pricing it may end up being as low as a couple of dollars every month.

I'd still be interested to know if there are other options out there.

ADD REPLY
0
Entering edit mode

Dekstop version of IGV has support for Google Cloud Storage, it will be cheaper than a compute instance.

https://googlegenomics.readthedocs.io/en/latest/use_cases/browse_genomic_data/igv.html https://cloud.google.com/storage/pricing

ADD REPLY
0
Entering edit mode

Thanks, I learned something new! For now, I created a storage bucket on AWS with the infrequent access option as it appeared to be more cost effective than GCP storage. I will keep exploring.

ADD REPLY

Login before adding your answer.

Traffic: 2148 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6