Question: How to generate .sra files from Fastq
2
gravatar for ktsuttlemyre
4.5 years ago by
ktsuttlemyre40
United States
ktsuttlemyre40 wrote:

I have been downloading a lot of NCBI short read archive files (.sra files) and I know how to convert them to bam, sam, fastq, etc but is there a way to generate my own .sra files? The tools in the SRA toolkit do not seem to convert to .sra

 

​Relevant Information:

SRA toolkit
http://eutils.ncbi.nih.gov/Traces/sra/?view=software
Handbook
http://www.ncbi.nlm.nih.gov/books/NBK47540/#SRA_Download_Guid_B.5_Converting_SRA_for

file format sequence fastq sra ncbi • 3.6k views
ADD COMMENTlink modified 4.5 years ago by Devon Ryan86k • written 4.5 years ago by ktsuttlemyre40

Out of curiosity: what would you like to do with *.sra files when you already have the *.bam/*.sam/*.fastq files?

ADD REPLYlink written 4.3 years ago by polarise380
3
gravatar for Pawel Szczesny
4.5 years ago by
Pawel Szczesny3.2k
Poland
Pawel Szczesny3.2k wrote:

I have never used it but Mothur has a command "make.sra".

ADD COMMENTlink written 4.5 years ago by Pawel Szczesny3.2k
2
gravatar for Devon Ryan
4.5 years ago by
Devon Ryan86k
Freiburg, Germany
Devon Ryan86k wrote:

You would use one of the X-load tools from the SRA toolkit, where X is bam, fastq, etc. Now why you would actually want to do this is beyond me. You're better off sticking to BAM and fastq, which are actually normal formats used by tools.

ADD COMMENTlink written 4.5 years ago by Devon Ryan86k
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