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Is it possible to get a shareable version of a Rattus norvegicus reference genome for 10X single-cell analysis?
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Why not build it with
mkref? Finding one on the web that works for you + downloading it will take almost as long (if not longer) than building it from the FA and GTF files.From what I understand, I do not have the computing power to use mkref. Can this be done on a standard computer typically?
Not really, no. You may want to look at leasing a node off AWS or a similar cloud computing service.
this was my concern. I can handle long download times for a large file but can't build it myself.
I know AWS is an option....but a very expensive one, no?
Not really - you should be able to get your task done in under $20, which is a lot less than you'd pay a contract bioinformatician to do it for you. Pick a 32GB RAM machine with 128GB of storage (say an r5ad.xl) - use a Spot instance. Get your stuff done within 24h and terminate the machine, pay like $7 max for compute: https://instances.vantage.sh/aws/ec2/r5ad.xlarge