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Scater: filter SCE (version 1.22.0)

Input SingleCellLoomExperiment dataset:

Type of filter:

Minimum library size (mapped reads) to filter cells on:

Raising this number will raise the stringency and may lower the number of included cells

Maximum % of mitochondrial genes expressed per cell:

Cells that exceed this value will be filtered out

Remove cells that have less than the given number of expressed features:

Number of reads mapped to a feature above which it to be deemed as expressed:

Raising this number will raise the stringency and may lower the number of expressed genes

Remove features that occur in less than the given number of cells:

Features that exceed this value will be filtered out

Filter a SingleCellLoomExperiment object with Scater using one of the following methods: