Difference between revisions of "Analysis with Nipype"

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(Created page with "'''Nipype is a pipeline configuration tool that controls analysis flow and easily reconfigures for added functionality'''<br> Nipype has strict requirements on inputs and out...")
 
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# Resting State
 
# Resting State
 
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SAM input base class used for all of the SAM functions
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Configuration on Biowulf:
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# Set up conda: instructions on NIH HPC - https://hpc.nih.gov/apps/python.html
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# Activate the conda environment and install nipype
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#If you do not know your environment name type: conda env list
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conda activate $ENVIRONMENT_NAME
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conda install -c nipype conda-forge

Revision as of 20:10, 30 October 2019

Nipype is a pipeline configuration tool that controls analysis flow and easily reconfigures for added functionality

Nipype has strict requirements on inputs and outputs

  1. InputSpec
  2. OutputSpec



Preconfigured pipeline templates:

  1. Epilepsy
    1. Sam_epi
  2. Task
    1. Parsemarks, addmarks, samcov, sam3d, ... stats?
  3. Resting State


SAM input base class used for all of the SAM functions


Configuration on Biowulf:

  1. Set up conda: instructions on NIH HPC - https://hpc.nih.gov/apps/python.html
  2. Activate the conda environment and install nipype
 #If you do not know your environment name type: conda env list
 conda activate $ENVIRONMENT_NAME   
 conda install -c nipype conda-forge