Nextflow Modules
Showing module(s) with keyword "microscopy"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/basicpy | Process | illumiation_correction background_correction microscopy imaging | BaSiCPy is a python package for background and shading correction of optical microscopy images. It is developed based on the Matlab version of BaSiC tool with major improvements in the algorithm. |
| nf-core/spotiflow | Process | imaging image microscopy transcriptomics spatial spot detection | Spotiflow, accurate and efficient spot detection with stereographic flow. |
| nf-core/vizgenpostprocessing/compiletilesegmentation | Process | vpt vizgen segmentation microscopy spatial transcriptomics | The module compiles segmentation tiles using Vizgen's post-processing tool. |
| nf-core/vizgenpostprocessing/preparesegmentation | Process | vpt vizgen segmentation microscopy spatial transcriptomics | The module prepares the specification JSON file for Vizgen's post-processing tool cell segmentation workflow. |
| nf-core/vizgenpostprocessing/runsegmentationontile | Process | vpt vizgen segmentation microscopy spatial transcriptomics | The module runs the segmentation algorithm on a specific tile using Vizgen's post-processing tool. |