decoupler.ds.knocktf

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decoupler.ds.knocktf#

decoupler.ds.knocktf(thr_fc=-1, verbose=False)#

KnockTF perturbation database.

Downloads gene contrast statistics from KnockTF [FSL+19], a large collection of transcription factor (TF) RNA-seq perturbation experiments.

The values in adata.X represent the log2FCs of genes between perturbed and unperturbed samples.

It also downloads all metadata associated to each perturbation experiment, such as which TF was perturbed, or in which tissue.

Parameters:

verbose (bool (default: False)) – Whether to display progress messages and additional execution details.

Return type:

AnnData

Returns:

AnnData object.

Example

import decoupler as dc

adata = dc.ds.knocktf()
adata
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