Description

SCIMAP is a suite of tools that enables spatial single-cell analyses

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

cellbyfeature:file

CSV file with cell by feature table

*.{csv}

Output

name:type
description
pattern

csv

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

*.csv:file

Sorted CSV file

*.{csv}

h5ad

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

*.h5ad:file

Sorted H5AD file

*.{h5ad}

versions

versions.yml:file

File containing software versions

versions.yml

Tools

scimap
MIT License

Scimap is a scalable toolkit for analyzing spatial molecular data.