apply_random_platform_effect
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Applies a random log-laplace distributed rescaling per gene inplace. |
check_counts_validity
|
Checks whether matrix looks like it is a unnormalized uncentered count matrix |
construct_reference_profiles
|
Constructs reference profiles from categorical annotations. |
filter
|
Filter one or more AnnData to satisfy simple quality criteria. |
filter_annotation
|
Filter AnnData to include only cells where at least one annotation is neither negative nor na. |
filter_profiles
|
Filter AnnData to include only genes where at least one profile is neither negative nor na. |
filter_reference
|
Filter AnnData to include only genes and cells where at least one .varm and .obsm annotation is neither negative nor na. |
filter_reference_genes
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Filter AnnData to include only genes which pass a set of quality and relevance criteria. |
normalize_platform
|
Normalize the expression data and/or profiles in an AnnData to conform with the expression in another dataset. |
refine_reference
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Refines a reference data set by scaling profiles and annotation to match the expression data. |
subsample_annotation
|
Subsamples the observations to change the annotation fractions. |