Sample tissue annotation
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M.M.M.M. • 0
@1c3cc6ce
Last seen 3 months ago
Netherlands

How can I keep track of each sample tissue type and whether or not it was from cancerous tissue? where can that be found?

recount3 • 131 views
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@lcolladotor
Last seen 21 days ago
United States

Hi,

That level of information is beyond what recount3 provides. You might find external sources such as https://metasra.biostat.wisc.edu/?species=human&assay=RNA-seq useful. For a given SRA study, expand_sra_attributes() http://research.libd.org/recount3/reference/expand_sra_attributes.html might be useful, but that depends on how the authors of the data described their samples when they uploaded them to SRA.

Thank you for your interest in recount3.

Best, Leo

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