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| Describe GrahamWideman here. | = GrahamWideman pages = == Useful pages == ||<#D0D0D0>'''Link''' ||<#D0D0D0>'''Description''' || || || || ||||<#D0D0D0 style="text-align:center">'''Concepts''' (articles by me) || ||<style="vertical-align:top">ReconAllFilesVsSteps ||Cross-reference table showing files read and written by each step in recon-all || ||<style="vertical-align:top">LabelsClutsAnnotationFiles ||Article on '''labels''', '''colortables''' and '''annotations''' || ||<style="vertical-align:top">[[tksurfer_labeledit]] ||'''Editing labels/annotations''' in tksurfer || ||<style="vertical-align:top">SurfaceRegAndTemplates ||Creating and using '''"tif" templates''' for spherical registration of surfaces || ||<style="vertical-align:top">SurfaceLabelAtlas ||Creating and using '''GCA atlas files''' for parcellation || ||<style="vertical-align:top">TemplateTifImageFiles ||Discussion of the contents and format of the so-called "Image" file format used to store !FreeSurfer surface-registration template data. || || || || ||||<#D0D0D0 style="text-align:center">'''Platform topics''' || ||<style="vertical-align:top">LinuxBoxUbuntuMint2013Report ||Report on configuring 2013-era desktop hardware for Linux and FreeSurfer, using Mint 15 distribution. || || || || ||||<#D0D0D0 style="text-align:center">'''Scripts''' || ||<style="vertical-align:top">QaImageScripts ||Sample scripts to produce "screencaps" en masse from tksurfer and tkmedit for QA || || || || ||||<#D0D0D0 style="text-align:center">'''Programs/Scripts''' (... for which I wrote some documentation) || ||<style="vertical-align:top">[[tksurfer]] ||Freesurfer's surface-viewing application. (I completed the list of flagged arguments.) || ||<style="vertical-align:top">[[mris_curvature_stats]] ||Curvature-related statistics || ||<style="vertical-align:top">[[mris_label2annot]] ||Combine label files plus colortable into an annotation file || ||<style="vertical-align:top">[[mri_annotation2label]] ||Extract label file from annotation file || ||<style="vertical-align:top">[[mris_make_template]] ||Use data from multiple subjects to create a surface registration template file || ||<style="vertical-align:top">[[mri_make_template]] ||Use data from multiple subjects to create a volume registration template || ||<style="vertical-align:top">[[mris_register]] ||For one subject, register to a registration template (usually resulting in ?h.sphere.reg) || ||<style="vertical-align:top">[[mrisp_paint]] ||"Paint" data from a template file "onto a given surface". Allows viewing data from a template file. || || || || ||||<#D0D0D0 style="text-align:center">'''Source code suggestions''' || ||<style="vertical-align:top">[[gwcode_tksurfer_delink]] ||Code relating to -delink || ||<style="vertical-align:top">[[gwcode_tksurfer_labelresize]] ||Code to allow the tool window's per-vertex data fields to expand on window resize || || || || || || || ||||<#D0D0D0 style="text-align:center">'''Issues''' || ||<style="vertical-align:top">[[gwissue_labeledit]] ||Issues regarding the tksurfer functionality relating to creating and editing labels and annotations || || || || ||||<#D0D0D0 style="text-align:center">'''Wiki''' || ||<style="vertical-align:top">WikiInsertImage ||Distilled instructions on how to insert an image on a wiki page || || || || |
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| Just a test. | |
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| Emphasis: ''italics''; '''bold'''; '''''bold italics'''''; ''mixed '''bold''' and italics''; ---- horizontal rule. Headings: = Title 1 =; == Title 2 ==; === Title 3 ===; ==== Title 4 ====; ===== Title 5 =====. Lists: space and one of * bullets; 1., a., A., i., I. numbered items; 1.#n start numbering at n; space alone indents. Links: JoinCapitalizedWords; ["brackets and double quotes"]; url; [url]; [url label]. Tables: || cell text |||| cell text spanning two columns ||; no trailing white space allowed after tables or titles. ---- CategoryCategory |
== Test Pages == * GrahamWideman * GrahamWideman/MoinEditorBackup * GrahamWidemanTest01 * GrahamWidemanTest02 * GrahamWidemanTest03 * GrWiAccessControlTest * GrWiTestNewPage * TitleIndexPage |
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| General table layout and HTML like options:: ||||||<tablewidth="80%" tablecellspacing="0">'''Heading'''|| ||cell 1||cell2||cell 3|| ||<rowspan=2> spanning rows||||<bgcolor='#E0E0FF'> spanning 2 columns|| ||<rowbgcolor="#FFFFE0">cell2||cell 3|| Cell width:: || narrow ||<:99%> wide || Spanning rows and columns:: ||<|2> 2 rows || row 1 || || row 2 || ||<-2> row 3 over 2 columns || Alignment:: ||<(> left ||<^|3> top ||<v|3> bottom || ||<:> centered || ||<)> right || Colors:: ||<#FF8080> red ||<#80FF80> green ||<#8080FF> blue || |
== Reference Pages == * SystemInfo * WikiConfig * WikiConfigHelp * GrahamWidemanTimeStamp |
GrahamWideman pages
Useful pages
Link |
Description |
|
|
Concepts (articles by me) |
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Cross-reference table showing files read and written by each step in recon-all |
|
Article on labels, colortables and annotations |
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Editing labels/annotations in tksurfer |
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Creating and using "tif" templates for spherical registration of surfaces |
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Creating and using GCA atlas files for parcellation |
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Discussion of the contents and format of the so-called "Image" file format used to store FreeSurfer surface-registration template data. |
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Platform topics |
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Report on configuring 2013-era desktop hardware for Linux and FreeSurfer, using Mint 15 distribution. |
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Scripts |
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Sample scripts to produce "screencaps" en masse from tksurfer and tkmedit for QA |
|
|
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Programs/Scripts (... for which I wrote some documentation) |
|
Freesurfer's surface-viewing application. (I completed the list of flagged arguments.) |
|
Curvature-related statistics |
|
Combine label files plus colortable into an annotation file |
|
Extract label file from annotation file |
|
Use data from multiple subjects to create a surface registration template file |
|
Use data from multiple subjects to create a volume registration template |
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For one subject, register to a registration template (usually resulting in ?h.sphere.reg) |
|
"Paint" data from a template file "onto a given surface". Allows viewing data from a template file. |
|
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Source code suggestions |
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Code relating to -delink |
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Code to allow the tool window's per-vertex data fields to expand on window resize |
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Issues |
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Issues regarding the tksurfer functionality relating to creating and editing labels and annotations |
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Wiki |
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Distilled instructions on how to insert an image on a wiki page |
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Test Pages
GrahamWideman