I am writing this tutorial in response to my previous question: NCBI SRA submission: neither sample_name nor biosample_accession are set.
I took me three days to figure our what's going on so I hope my tutorial can save your time and make your life easier:
Tutorial: How to upload your data to the evil Sequence Read Archive (SRA)?
Thanks for putting this all together.
Right from the start, just getting data in and out of the SRA demonstrates the complete disconnect between the theory and the reality of reproducible research.
I can't agree more with you.
Not sure I understand this part:
As you mention elsewhere, it's running linux. In that case, it should have FTP. You can use
which ftpto confirm.
Yes. I have tried ftp using the following instruction:
However, I found that if I am not going to write a script for the process, it's easy for me to make mistake and get kicked out from the log in status. That's why I choose to use Aspera in which I can only put one line of command to achieve what I want.
thank you so much for this post. It will be very useful.
I would like to ask you one question: Do you know if they have requirements to let you upload you data (in terms of quality and contamination of your samples, for example with adaptors)?
I don't think they check the contents of your files other than to make sure they are in the proper format.