<div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">Hi all, </div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">Everything I have is in </div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"> <span style="font-variant-ligatures:no-common-ligatures;color:rgb(0,0,0);font-family:Menlo;font-size:11px">/home/bic/rotor/data</span></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">From a look around in there, I think it has what louis is looking for. </div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">login1:</span><span class="gmail-s2" style="font-variant-ligatures:no-common-ligatures;color:rgb(86,32,244)"><b>data</b></span><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">$ ls</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">ADNI-data01<span class="gmail-Apple-converted-space"> </span>als<span class="gmail-Apple-converted-space"> </span>avgbrain<span class="gmail-Apple-converted-space"> </span>icbm_recovery<span class="gmail-Apple-converted-space"> </span>jacob_atlas.obj<span class="gmail-Apple-converted-space"> </span>mni-models<span class="gmail-Apple-tab-span" style="white-space:pre"> </span>ms-mni-bu<span class="gmail-Apple-converted-space"> </span>prism<span class="gmail-Apple-converted-space"> </span>symatlas<span class="gmail-Apple-converted-space"> </span>tle</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><br></span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"><br></span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">login1:</span><span class="gmail-s2" style="font-variant-ligatures:no-common-ligatures;color:rgb(86,32,244)"><b>data</b></span><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">$ ls avgbrain/*/*</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">avgbrain/avgbrain1/atlas:</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">talairach<span class="gmail-Apple-converted-space"> </span>wolforth_atlas</span></p><p class="gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0);min-height:13px"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">avgbrain/avgbrain1/brain:</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">autoreg <span class="gmail-Apple-converted-space"> </span>brain-models<span class="gmail-Apple-converted-space"> </span>male-female-diff <span class="gmail-Apple-converted-space"> </span>males-low-Z<span class="gmail-Apple-converted-space"> </span>ms-normal<span class="gmail-Apple-converted-space"> </span>native-xfm<span class="gmail-Apple-converted-space"> </span>temp-work-files-not-to-delete</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">brain_mask<span class="gmail-Apple-converted-space"> </span>images<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>males-females-low-Z<span class="gmail-Apple-converted-space"> </span>manreg<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>native <span class="gmail-Apple-converted-space"> </span>old_images</span></p><p class="gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0);min-height:13px"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">avgbrain/avgbrain1/vasco:</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">avgbrain.fx</span></p><p class="gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0);min-height:13px"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">avgbrain/avgbrain2/brain:</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">auto-corr<span class="gmail-Apple-converted-space"> </span>brain-models<span class="gmail-Apple-converted-space"> </span>manreg<span class="gmail-Apple-converted-space"> </span>native</span></p><p class="gmail-p2" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0);min-height:13px"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span><br></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">avgbrain/avgbrain2/vasco:</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">brain_mask.mnc.Z<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>feature_t1.mnc.Z<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>kollokian_vasco_t1.mnc.Z<span class="gmail-Apple-tab-span" style="white-space:pre"> </span> phantom10.mnc.Z <span class="gmail-Apple-converted-space"> </span>t1.mnc.gz</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">brain_mask_t.mnc.gz<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>feature_t2.mnc.Z<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>kollokian_vasco_t1tal.log<span class="gmail-Apple-converted-space"> </span><a href="http://phantom_doc.ps">phantom_doc.ps</a><span class="gmail-Apple-converted-space"> </span>t2.mnc.gz</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">brain_vein_dura_mask.mnc.Z<span class="gmail-Apple-converted-space"> </span>fill_pd<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>kollokian_vasco_t1tal.xfm<span class="gmail-Apple-converted-space"> </span>phantom_pd.mnc.Z<span class="gmail-Apple-converted-space"> </span>vasco_label.tag</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">classified_brain_t.mnc.gz <span class="gmail-Apple-converted-space"> </span>fill_t1<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>kollokian_vasco_t2.mnc.Z<span class="gmail-Apple-tab-span" style="white-space:pre"> </span> phantom_t1.mnc.Z<span class="gmail-Apple-converted-space"> </span>vasco_stx_label.tag</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">classified_t.mnc.gz<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>fill_t2<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>make_brain_phantom.txt<span class="gmail-Apple-tab-span" style="white-space:pre"> </span> phantom_t2.mnc.Z<span class="gmail-Apple-converted-space"> </span>vasco_stx.tag</span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures"></span></p><p class="gmail-p1" style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-variant-alternates:normal;font-kerning:auto;font-feature-settings:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)"><span class="gmail-s1" style="font-variant-ligatures:no-common-ligatures">feature_pd.mnc.Z<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-converted-space"> </span>kollokian_vasco_pd.mnc.Z<span class="gmail-Apple-converted-space"> </span>pd.mnc.gz<span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-tab-span" style="white-space:pre"> </span><span class="gmail-Apple-tab-span" style="white-space:pre"> </span> readme.1st<span class="gmail-Apple-tab-span" style="white-space:pre"> </span> <span class="gmail-Apple-converted-space"> </span>vasco_t2-t1.tag</span></p></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">Thanks</div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">a</div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div></div></div></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Thu, 16 May 2024 at 01:22, Louis Collins, Dr. <<a href="mailto:louis.collins@mcgill.ca">louis.collins@mcgill.ca</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div>
<div><font size="2"><span style="font-size:11pt">
<div>HI all,<br>
<br>
I’ve checked again to try to find the original average of 250 manually registered T1w 1.5T (Philips) MRIs that are described in Alan’s 1992 abstract.
<br>
<br>
Andrew - if you have time, could you poke around /data/ipl/ipl*/rotor ? I don’t have permissions to do so.<br>
<br>
I have managed to find a bunch of other templates and made a slide if anyone is interested. I’d love to add the avg250.mnc to complete the collection.<br>
<br>
-Louis<br>
</div>
</span></font></div>
<div><font size="2"><span style="font-size:11pt">
<div><br>
<br>
> On May 14, 2024, at 12:00, <a href="mailto:minc-development-request@bic.mni.mcgill.ca" target="_blank">minc-development-request@bic.mni.mcgill.ca</a> wrote:<br>
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> 1. Re: location of avg250 ? (Andrew Janke)<br>
> <br>
> <br>
> ----------------------------------------------------------------------<br>
> <br>
> Message: 1<br>
> Date: Tue, 14 May 2024 20:08:47 +1000<br>
> From: Andrew Janke <<a href="mailto:a.janke@gmail.com" target="_blank">a.janke@gmail.com</a>><br>
> To: "MINC development discussion & planning"<br>
> <<a href="mailto:minc-development@bic.mni.mcgill.ca" target="_blank">minc-development@bic.mni.mcgill.ca</a>><br>
> Subject: Re: [MINC-development] location of avg250 ?<br>
> Message-ID:<br>
> <<a href="mailto:CAG0CB20KzGEPOPcNbb4BE9YKOB7MeNphtiNRbG3wxTkW2vsXMA@mail.gmail.com" target="_blank">CAG0CB20KzGEPOPcNbb4BE9YKOB7MeNphtiNRbG3wxTkW2vsXMA@mail.gmail.com</a>><br>
> Content-Type: text/plain; charset="utf-8"<br>
> <br>
> Afternoon/morning/evening all,<br>
> <br>
> <br>
> Louis, I did go through all the old archives when I was helping JF clean up<br>
> the original shadow server before decom and movement to the first Linux ipl<br>
> drives we built. Would have been around 2004?<br>
> <br>
> As part of this, I did find all the original models, source data and some<br>
> of the scripts including the 250, the data was in a word, amusing. By 2006<br>
> standards, huge artifacts, but yet built a great model. I do wonder what<br>
> the 2024 young pups would think. ?<br>
> <br>
> So, the data will be in one of the /data/ipl/iplxx drives in a rotor share.<br>
> If I can recall my password I could take a crack at finding them if they<br>
> haven't been reassigned.<br>
> <br>
> Thanks<br>
> <br>
> <br>
> a<br>
> <br>
> On Tue, 14 May 2024, 01:33 Gabriel Allan Devenyi, Dr, <<br>
> <a href="mailto:gabriel.devenyi@mcgill.ca" target="_blank">gabriel.devenyi@mcgill.ca</a>> wrote:<br>
> <br>
>> According to<br>
>> <a href="https://en.wikibooks.org/wiki/MINC/Atlases/Atlases/History#Average_250_T1_model" target="_blank">
https://can01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fen.wikibooks.org%2Fwiki%2FMINC%2FAtlases%2FAtlases%2FHistory%23Average_250_T1_model&data=05%7C02%7Clouis.collins%40mcgill.ca%7C8f7d1ca0f52f4fc9cf0808dc742eee2d%7Ccd31967152e74a68afa9fcf8f89f09ea%7C0%7C0%7C638512992120641930%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=9Zj%2BSErYEymKtnZbkT5sHAjLmo%2B4W%2FNsiR3XZcKcMpg%3D&reserved=0</a><br>
>> <br>
>>> This original MNI-space model has never been officially released from<br>
>> the MNI.<br>
>> <br>
>> This might make finding it difficult.<br>
>> <br>
>> ________________________________________<br>
>> From: MINC-development <<a href="mailto:minc-development-bounces@bic.mni.mcgill.ca" target="_blank">minc-development-bounces@bic.mni.mcgill.ca</a>> on<br>
>> behalf of Louis Collins, Dr. <louis.collins@McGill.Ca><br>
>> Sent: May 13, 2024 08:36<br>
>> To: <a href="mailto:minc-development@bic.mni.mcgill.ca" target="_blank">minc-development@bic.mni.mcgill.ca</a><br>
>> Subject: [MINC-development] location of avg250 ?<br>
>> <br>
>> Hi all,<br>
>> <br>
>> I was looking at our history of minc stereotaxic MRI average templates. I<br>
>> can?t seem to find the avg250.mnc (mni250.mnc ?) that is described in<br>
>> Evans, A., Collins, D. L., & Milner, B. (1992). An MRI-based<br>
>> stereotaxic atlas from 250 young normal subjects. Paper presented at the<br>
>> Society for Neuroscience.<br>
>> <br>
>> Anyone have any ideas where I can find it?<br>
>> <br>
>> -Louis<br>
>> <br>
>> <br>
>> _______________________________________________<br>
>> MINC-development mailing list<br>
>> <a href="mailto:MINC-development@bic.mni.mcgill.ca" target="_blank">MINC-development@bic.mni.mcgill.ca</a><br>
>> <a href="https://mailman.bic.mni.mcgill.ca/mailman/listinfo/minc-development" target="_blank">
https://mailman.bic.mni.mcgill.ca/mailman/listinfo/minc-development</a><br>
>> <br>
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