Commit 31d81cff authored by Shaun Warrington's avatar Shaun Warrington
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Merge branch 'patch-1' into 'master'

Update README

See merge request !7
parents 5b1d1a86 5842b6fb
......@@ -12,8 +12,10 @@ Saad Jbabdi, Kathryn Bryant, Shaun Warrington, Marina Charquero-Ballester, Gwena
Citations:
Warrington S, Bryant K, Charquero-Ballester M, Douaud G, Jbabdi S*, Mars R*, Sotiropoulos SN* (under review)
Standardised protocols for automated tractography in the human and macaque brain.
Warrington S, Bryant K, Khrapitchev A, Sallet J, Charquero-Ballester M, Douaud G,
Jbabdi S*, Mars R*, Sotiropoulos SN* (2020) XTRACT - Standardised protocols for
automated tractography in the human and macaque brain.
NeuroImage. DOI: 10.1016/j.neuroimage.2020.116923
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......@@ -41,11 +43,11 @@ Then create the following image files (with this exact naming) and copy them int
In order to use the protocol masks with XTRACT, you need to defined a seeding strategy in a file called StructureList.
See e.g. $FSLDIR/etc/xtract/Human or $FSLDIR/etc/xtract/Macaque for examples.
See e.g. $FSLDIR/data/xtract/Human or $FSLDIR/data/xtract/Macaque for examples.
The StructList file is a text file with one entry per tract following this scheme:
<tractName> <number>
`<tractName> <number>`
where <tractName> matches the protocol folder name (e.g. 'mytrack'), and <number> is the number of streamlines (in thousands) that are seeded from each seed voxel. This text file can have comments in it (using '#').
where `<tractName>` matches the protocol folder name (e.g. 'mytrack'), and <number> is the number of streamlines (in thousands) that are seeded from each seed voxel. This text file can have comments in it (using '#').
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