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The result is stored under an Enrichment task node. To open it, double click on the node or select the respective Task report from the context sensitive menu.

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Cell ranger task report

Figure 4 shows an example Gene set enrichment task report. The table contains one gene set per row (Gene set column; the column entries are hyperlinks when using the distributed GO gene sets), with the category name in the Description column. The categories are ranked by the Enrichment score, which is the negative natural logarithm of the enrichment p-value (P-value column) derived from Fisher's exact test on the underlying contingency table. The higher the enrichment score, the more overrepresented the GO category is within the input list of significant genes. The columns can be searched by typing in the search term in the respective box (and hitting Enter), or sorted by selecting the double arrow icon ( ).

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Numbered figure captions
SubtitleTextSelecting a GO category in the table report opens up a browser and displays additional information on that category via GO web-page
AnchorNameGO category selection

References

  1. Ashburner M, Ball CA, Blake JA et al. Gene Ontology: tool for the unification of biology. Nat Genetics. 2000; 25:25-29.
  2. The Gene Ontology Consortium. Gene Ontology Consortium: going forward. Nucleic Acids Res. 2015; 43:D1049-1056.Recommended citations from the Geneontology.org website

    https://support.10xgenomics.com/single-cell-gene-expression/software/overview/welcome

  3. https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/6.0/release-notes

  4. https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/4.0/release-notes


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