omicverse.micro.DA

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omicverse.micro.DA#

class omicverse.micro.DA(adata)[source]#

Per-feature differential abundance across sample groups.

Parameters:

adata (AnnData) – Samples × features AnnData with int counts in X.

__init__(adata)[source]#
Parameters:

adata (AnnData)

Methods

__init__(adata)

ancombc(group_key[, rank, min_prevalence, ...])

ANCOM-BC via skbio.stats.composition.ancombc (skbio ≥ 0.7.1).

deseq2(group_key[, group_a, group_b, rank, ...])

Differential abundance via pyDESeq2 (negative-binomial GLM).

wilcoxon(group_key[, group_a, group_b, ...])

Two-group Mann-Whitney U test per feature.
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