modules/mindagap_mindagap

Takes a single panorama image and fills the empty grid lines with neighbour-weighted values.

imagingresolve_biosciencespatial_transcriptomics

https://github.com/nf-core/modules/[...]/modules/nf-core/mindagap/mindagap

Description

Takes a single panorama image and fills the empty grid lines with neighbour-weighted values.

Input

name:type

description

pattern

`meta:map`

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

`panorama:file`

A tiff file containing gridlines as produced by Molecular Cartography imaging.

*.{tif,tiff}

Output

name:type

description

pattern

`tiff`

`meta:map`

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

`*.{tif,tiff}:file`

A tiff file with gridlines filled based on consecutive gaussian blurring.

*.{tiff}

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

mindagap
BSD-3-Clause license

Mindagap is a collection of tools to process multiplexed FISH data, such as produced by Resolve Biosciences Molecular Cartography.

github.com/ViriatoII/MindaGap github.com/ViriatoII/MindaGap/blob/main/README.md https://github.com/ViriatoII/MindaGap

modules/mindagap_mindagap

Description

Input

meta:map

panorama:file

Output

tiff

meta:map

*.{tif,tiff}:file

versions

versions.yml:file

Tools

mindagap BSD-3-Clause license

`meta:map`

`panorama:file`

`tiff`

`meta:map`

`*.{tif,tiff}:file`

`versions`

`versions.yml:file`

mindagap
BSD-3-Clause license