Allow DEA to be performed on a subset of the samples#1627
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@maubermann this is relevant for you |
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@oganm you should trigger the integration tests with Jenkins is set up to report which stages of the build were performed, but it stopped working once I migrated to use @ppavlidis' token. |
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samples currently only accepts IDs, full names (i.e. "GSE2018_bioMaterial_11|GSM36433" for sample 24 of GSE2018). Accessions don't seem to be working |
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Using accessions and names have minor issues related to #1640 but using them as returned by Gemma samples endpoint or anything that relies on an ExpressionExperiment object should be fine |
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@oganm we typically don't assign accessions to BioMaterial, but to BioAssay. I made this specifically for resolving samples, but you could add additional checks for assays too. |
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@oganm I haven't tested these two queries, but the idea is to fetch all the samples with the assay they belong to.
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