brainlife / app-snr_in_cc

Brainlife.io app that computes the signal-to-noise ratio in the corpus callosum
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Output b0 for visualization #3

Open soichih opened 5 years ago

soichih commented 5 years ago

@bacaron suggested that we could show the cc.nii.gz superimposed on top of dwi (b0?) to check if the CC voxels are located where it should be.

We could do the following.

1) output b0.nii.gz from the input dwi.nii.gz 2) register a new datatype (neuro/snr?) and use fsleyes to visualize all .nii.gz outputs. 3) (optionally) output sagital/coronal/axial view of the cc super imposed on top of b0 and add paths on product.json to show on Brainlife.

soichih commented 5 years ago

We now have a pretty good way of embedding image directly inside the product.json. If we could generate this image (showing CC alignment), then we can do something like this to embed it

https://github.com/brain-life/app-hcp-acpc-alignment/blob/master/run.sh#L34