Fix DTI protocol #228
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Fix DTI protocol #228
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This also works with older `mrreslice`
TheJaeger
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TheJaeger
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Oct 26, 2020
* Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs
TheJaeger
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Dec 7, 2020
* Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs
TheJaeger
added a commit
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this pull request
Dec 7, 2020
* Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs * Fiber Tracking: FBI tractography (#235) (#237) * Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs * Change dki_ak fname (#238)
TheJaeger
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Dec 22, 2020
* Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs * Fiber Tracking: FBI tractography (#235) (#237) * Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs * Change dki_ak fname (#238) * Update shell sampling determination (#240) * Add new functions to determine DWI shell sampling * Remove references to old functions * Change how shell sampling is determined * Update documentation
TheJaeger
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Feb 12, 2021
* Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs * Fiber Tracking: FBI tractography (#235) (#237) * Fix DTI protocol (#228) * Update reslicing to use new `mrgrid` command This also works with older `mrreslice` * Fix bad indent in tensorReorder() * Update documentation * Add bval scaling (#230) * Fix SNR plotting issues (#233) * Add try/except loop to SNR plot * Fix eddy path when `--noqc` is parsef * Fix a bad indent * Update CHANGELOG * Init tractography module (#234) * Init tractography module with DSI Studio * Update main to use tractography modules * Update version and MANIFEST * Update docs * Change dki_ak fname (#238) * Update shell sampling determination (#240) * Add new functions to determine DWI shell sampling * Remove references to old functions * Change how shell sampling is determined * Update documentation * Fast-forward develop to master * Fix dki_rk caclulation * Update WMTI calculations * Modify PyDesigner WMTI output names * Add error handling in FBWM cost function * Update PyDesigner version to v1.0-RC7 * Update documentation * Update CHANGELOG
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This PR fixes issues in tensor reordering when a DTI protocol is processed. In additon, the
--reslicing x,y,zflag has been updated to use the newer MRTrix3 versions.