Description

Use cellbender for empty droplet removal

Input

name
description
pattern

ch_unfiltered

The input channel containing the unfiltered AnnData file to process
and remove background noise and empty droplets
Structure: [ val(meta), path(h5ad) ]

*.h5ad

Output

name
description
pattern

h5ad

Background and empty droplet removed AnnData file containing cells with
barcodes exceeding 0.5 posterior cell probability determined by the
cellbender’s remove-background
Structure: [ val(meta), path(h5ad) ]

*.h5ad

versions

File containing software versions

versions.yml
included in
scdownstreamscrnaseq
included modules and subworkflows
cellbender/removebackgroundanndata/barcodes
maintainer
Github user nictru
get in touch
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