Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the volume segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate cortex (rostral anterior cingulate in the parcellation atlas), are mislabelled as corpus callosum or "unlabelled subcortical". A fix for this is in the works, possibly for the next release."
thanks, Mike H.
Hi Mike,
The midline fix for most updated version of Freesurfer (v4.0.0) does indeed refer to the correction of the mislabelling of the rostral anterior cingulate as the corpus callosum, which was present in the prior version.
Best,
rahul
Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the volume segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate cortex (rostral anterior cingulate in the parcellation atlas), are mislabelled as corpus callosum or "unlabelled subcortical". A fix for this is in the works, possibly for the next release."
thanks, Mike H.
-- Michael Harms, Ph.D.
Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 Renard Hospital, Room 6615 Tel: 314-747-6173 660 South Euclid Ave. Fax: 314-747-2182 St. Louis, MO 63110 Email: mharms@wustl.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Rahul, Was that mislabeling of rostral anterior cingulate as callosum something that was relevant just for the volume segmentation (aseg)? Or were the surface parcellations (aparcs) somehow affected by the bug as well?
thanks, Mike H.
On Wed, 2007-10-10 at 12:16 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The midline fix for most updated version of Freesurfer (v4.0.0) does indeed refer to the correction of the mislabelling of the rostral anterior cingulate as the corpus callosum, which was present in the prior version.
Best,
rahul
Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the volume segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate cortex (rostral anterior cingulate in the parcellation atlas), are mislabelled as corpus callosum or "unlabelled subcortical". A fix for this is in the works, possibly for the next release."
thanks, Mike H.
-- Michael Harms, Ph.D.
Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 Renard Hospital, Room 6615 Tel: 314-747-6173 660 South Euclid Ave. Fax: 314-747-2182 St. Louis, MO 63110 Email: mharms@wustl.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Mike,
The mislabelling was primarily for the surface parcellations (aparc) but I think it would also affect the asegs as well.
Best,
rahul
Hi Rahul, Was that mislabeling of rostral anterior cingulate as callosum something that was relevant just for the volume segmentation (aseg)? Or were the surface parcellations (aparcs) somehow affected by the bug as well?
thanks, Mike H.
On Wed, 2007-10-10 at 12:16 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The midline fix for most updated version of Freesurfer (v4.0.0) does indeed refer to the correction of the mislabelling of the rostral anterior cingulate as the corpus callosum, which was present in the prior version.
Best,
rahul
Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the
volume
segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate
cortex
(rostral anterior cingulate in the parcellation atlas), are
mislabelled
as corpus callosum or "unlabelled subcortical". A fix for this is in
the
works, possibly for the next release."
thanks, Mike H.
-- Michael Harms, Ph.D.
Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 Renard Hospital, Room 6615 Tel: 314-747-6173 660 South Euclid Ave. Fax: 314-747-2182 St. Louis, MO 63110 Email: mharms@wustl.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Was this fix implemented by a change to the probabilistic, 40-brain Desikan parcellation atlas, or was the atlas itself unaffected? If the latter, could you please briefly describe how the fix was effected?
thanks! Mike H.
On Wed, 2007-10-10 at 13:11 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The mislabelling was primarily for the surface parcellations (aparc) but I think it would also affect the asegs as well.
Best,
rahul
Hi Rahul, Was that mislabeling of rostral anterior cingulate as callosum something that was relevant just for the volume segmentation (aseg)? Or were the surface parcellations (aparcs) somehow affected by the bug as well?
thanks, Mike H.
On Wed, 2007-10-10 at 12:16 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The midline fix for most updated version of Freesurfer (v4.0.0) does indeed refer to the correction of the mislabelling of the rostral anterior cingulate as the corpus callosum, which was present in the prior version.
Best,
rahul
Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the
volume
segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate
cortex
(rostral anterior cingulate in the parcellation atlas), are
mislabelled
as corpus callosum or "unlabelled subcortical". A fix for this is in
the
works, possibly for the next release."
thanks, Mike H.
-- Michael Harms, Ph.D.
Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 Renard Hospital, Room 6615 Tel: 314-747-6173 660 South Euclid Ave. Fax: 314-747-2182 St. Louis, MO 63110 Email: mharms@wustl.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
both I think. Rahul fixed some thinks in the manual parcellations, and I passed the aseg to mris_ca_label so it could tell if surface locations were adjacent to callosum
On Wed, 10 Oct 2007, Michael Harms wrote:
Was this fix implemented by a change to the probabilistic, 40-brain Desikan parcellation atlas, or was the atlas itself unaffected? If the latter, could you please briefly describe how the fix was effected?
thanks! Mike H.
On Wed, 2007-10-10 at 13:11 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The mislabelling was primarily for the surface parcellations (aparc) but I think it would also affect the asegs as well.
Best,
rahul
Hi Rahul, Was that mislabeling of rostral anterior cingulate as callosum something that was relevant just for the volume segmentation (aseg)? Or were the surface parcellations (aparcs) somehow affected by the bug as well?
thanks, Mike H.
On Wed, 2007-10-10 at 12:16 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The midline fix for most updated version of Freesurfer (v4.0.0) does indeed refer to the correction of the mislabelling of the rostral anterior cingulate as the corpus callosum, which was present in the prior version.
Best,
rahul
Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the
volume
segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate
cortex
(rostral anterior cingulate in the parcellation atlas), are
mislabelled
as corpus callosum or "unlabelled subcortical". A fix for this is in
the
works, possibly for the next release."
thanks, Mike H.
-- Michael Harms, Ph.D.
Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 Renard Hospital, Room 6615 Tel: 314-747-6173 660 South Euclid Ave. Fax: 314-747-2182 St. Louis, MO 63110 Email: mharms@wustl.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Mike,
As Bruce mentioned, I did some fixes in the manual parcellations which affects the aparc atlas in addition to the changes he made.
Best,
rahul
both I think. Rahul fixed some thinks in the manual parcellations, and I passed the aseg to mris_ca_label so it could tell if surface locations were adjacent to callosum
On Wed, 10 Oct 2007, Michael Harms wrote:
Was this fix implemented by a change to the probabilistic, 40-brain Desikan parcellation atlas, or was the atlas itself unaffected? If the latter, could you please briefly describe how the fix was effected?
thanks! Mike H.
On Wed, 2007-10-10 at 13:11 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The mislabelling was primarily for the surface parcellations (aparc) but I think it would also affect the asegs as well.
Best,
rahul
Hi Rahul, Was that mislabeling of rostral anterior cingulate as callosum something that was relevant just for the volume segmentation (aseg)? Or were the surface parcellations (aparcs) somehow affected by the bug as well?
thanks, Mike H.
On Wed, 2007-10-10 at 12:16 -0400, rahul@nmr.mgh.harvard.edu wrote:
Hi Mike,
The midline fix for most updated version of Freesurfer (v4.0.0) does indeed refer to the correction of the mislabelling of the rostral anterior cingulate as the corpus callosum, which was present in the prior version.
Best,
rahul
Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the
volume
segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate
cortex
(rostral anterior cingulate in the parcellation atlas), are
mislabelled
as corpus callosum or "unlabelled subcortical". A fix for this is in
the
works, possibly for the next release."
thanks, Mike H.
-- Michael Harms, Ph.D.
Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 Renard Hospital, Room 6615 Tel: 314-747-6173 660 South Euclid Ave. Fax: 314-747-2182 St. Louis, MO 63110 Email: mharms@wustl.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Mike,
it's a fix for the aparc, essentially using the aseg to inform it, since we now explicitly label the callosum.
cheers, Bruce On Wed, 10 Oct 2007, Michael Harms wrote:
Hello, The Release Notes of v4.0.0 indicate that one of the bug fixes was "Corrected midline parcellation". Is this a fix that affects the volume segmentation (aseg) or the surface parcellation (aparc)?
Is that the fix for what was described in the "Known Issues" of v3.0.5 as "During cortical parcellation, areas of the anterior cingulate cortex (rostral anterior cingulate in the parcellation atlas), are mislabelled as corpus callosum or "unlabelled subcortical". A fix for this is in the works, possibly for the next release."
thanks, Mike H.
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Michael Harms -
rahul＠nmr.mgh.harvard.edu