Entering edit mode
6.7 years ago
I0110
▴
140
Is it possible to host a bam file on MongoDB and slice it with R? I am thinking to develop a shiny app to visualize RNAseq reads for my data. Thanks!
why storing a bam in a database when you can have a direct access to the files on your server ?
I want to make a shiny app to visualize a unique type of RNAseq results. Some characters of this RNAseq data cannot be visualized with IGV. I do it with R on my Mac (wouldn't have a server for few months), but it would be a lot easier for my collaborators if it is in a shiny app.
it doesn't answer my question: why would you store a BAM in a mongdb when you can store the BAM files on your server ? Storing the path on mongo is OK, storing the reads looks weird to me. see also: In-place writable BAM files
How could I store the BAM on my server if I do not have one? As I said I would not have server access for few months :-( Even I have a server, I think MongoDB is more stable and it is free in some cases. Thanks for the link. I will think about it :-)
i don't understand; if you have a mongdb server, then you have a server.... (?)
If I have a mlab account, can I consider that my server?
ah, I understand now. You're not the owner of the server and your'e just using mongodb as a service.