JaneliaSciComp/bigstream_computeinverse

module

Compute the inverse of a local deformation field using Bigstream

bigstream inverse deformation

Module Information

Repository: https://github.com/JaneliaSciComp/nextflow-modules/tree/main/modules/janelia/bigstream/computeinverse
Source: Janelia
Organization: JaneliaSciComp
Authors: @cgoina , @fleishmang

Tool for creating an alignment pipeline using different ITK algorithms

License: ['BSD-3-Clause']

Name	Type	Description
meta	map	Groovy map containing: id
deform_dir	directory	Location of the displacement vector field
deform_name	string	Name of the deformation transform file
deform_subpath	string	Displacement vector subpath within the deform container
inv_deform_dir	directory	Output directory for the inverse displacement vector field
inv_deform_name	string	Name of the inverse deformation transform file
inv_deform_subpath	string	Inverse displacement vector subpath
dask_scheduler	string	Dask scheduler address
dask_config	file	Dask configuration file (optional)
cpus	integer	Number of CPUs allocated to the process
mem_gb	integer	Memory in GB allocated to the process

Name	Type	Description
meta	map	Groovy map containing: id
full_deform_dir	string	Full resolved path to the deformation directory
deform_name	string	Name of the deformation transform file
deform_subpath	string	Displacement vector subpath
full_inv_deform_dir	string	Full resolved path to the inverse deformation directory
inv_deform_name	string	Name of the inverse deformation transform file
inv_deform_subpath	string	Inverse displacement vector subpath

Include this module in your Nextflow pipeline:

include { BIGSTREAM_COMPUTEINVERSE } from 'https://github.com/JaneliaSciComp/nextflow-modules/tree/main/modules/janelia/bigstream/computeinverse'