Filter samples for DEA as per their number of cells #1566
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arteymix
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arteymix
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Nov 28, 2025
| // filter options | ||
| addEnumOption( options, "filterMode", "filter-mode", "Mode to use for filtering repetitive values. Default is to auto-detect.", DifferentialExpressionAnalysisFilter.Mode.class ); | ||
| options.addOption( Option.builder( "filterMinAssays" ) | ||
| .longOpt( "filter-minimum-assays" ) |
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This should be renamed minimum samples. The columns of a data matrix are mapped to samples, not assays.
Always filter outliers in the DEA filter and make it optional for the default EE filter.
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