HED-SCORE version 2.0.0 prerelease #158

dorahermes · 2024-04-01T17:56:42Z

This is a major revision of the HED-SCORE schema library with several non-backwards compatible changes. Several major updates include:

Citations are added for all definitions.
Source localization and brain region tags have been removed. Several simple tags from HED can be used to indicate body parts and other tools and atlases can provide more detail for brain regions.
Overlapping tags with HED (e.g. drowsiness) have been removed, and replaced with suggested tags (drowsy). For example, asymmetries and sides (left/right) should be tagged with HED tags for left/right/symmetrical/asymmetrical. These tags are included as suggested tags.

…he epilogue

…al and frontal arousal pattern to correct section under physiological patterns (Table 14)

…d nowiki tags up to interictal

…zure, renamed electrographic seizure to electroencephalographic seizure, moved cataplexy to sleep related episodes and moved unclassified epileptic seizure to udner unknown onset seizure per 2017 supplement 1

…chaged numerical/takes value. Still need to revisit muscle side after going over finding properties/hemi.

…. May need further review.

…ions

…and some changes throughout for suggestedTags, replacing positive and negative and symmetric etc with suggestedTags

dorahermes · 2024-04-01T18:31:16Z

@VisLab @neuromechanist @smakeig @christinerogers please review - this is open for comments!

dorahermes · 2024-04-04T17:32:02Z

Question: is it possible to have a top-level tag can have a free text or have a child. I think this is incorrect, but not sure how to fix:

** Provocative-factor <nowiki>{SuggestedTag=Hyperventilation}[Provocative factors are defined as transient and sporadic endogenous or exogenous elements capable of evoking/triggering seizures immediately following the exposure to it. (Source: Beniczky ea 2013.)]</nowiki>
    *** <nowiki># {takesValue, valueClass=textClass}[Free text.]</nowiki>
    *** Reflex-provoked
          **** <nowiki># {takesValue, valueClass=textClass}[Free text.]</nowiki>

library_schemas/score/prerelease/HED_score_1.1.1.mediawiki

VisLab · 2024-04-07T15:59:16Z

library_schemas/score/prerelease/HED_score_1.1.1.mediawiki

+        ** Tonic-contraction <nowiki> [Source: Beniczky ea 2017, Table 16.] </nowiki>
+        ** Other-EMG-features <nowiki> {requireChild} [Source: Beniczky ea 2017, Table 16.]</nowiki>
+            *** <nowiki># {takesValue, valueClass=textClass}[Free text.]</nowiki>
+    * Other-polygraphic-channel <nowiki> {requireChild}[Source: Beniczky ea 2017, Section 13.] </nowiki>
        ** <nowiki># {takesValue, valueClass=textClass}[Free text.]</nowiki>


 '''Finding-property''' <nowiki>[Descriptive element similar to main HED /Property. Something that pertains to a thing. A characteristic of some entity. A quality or feature regarded as a characteristic or inherent part of someone or something. HED attributes are adjectives or adverbs.]</nowiki>


We might think about the name of this... after we see how things fit in 8.3.0.

library_schemas/score/prerelease/HED_score_1.1.1.mediawiki

VisLab · 2024-04-07T16:24:48Z

library_schemas/score/prerelease/HED_score_1.1.1.mediawiki

+    * Source-analysis-property <nowiki>[In case source imaging is done, the results are scored at sublobar level: frontal (perisylvian-superior surface; lateral; mesial; polar; orbitofrontal), temporal (polar; basal, lateral-anterior; lateral-posterior; perisylvian-inferior surface), central (lateral convexity; mesial; central sulcus – anterior surface, central sulcus – posterior surface; opercular), parietal (lateral-convexity; mesial; opercular), occipital (lateral; mesial, basal) and insula. (Source: Beniczky ea 2017, Section 8.)]</nowiki>
+        ** <nowiki># {takesValue, valueClass=textClass}[Free text.]</nowiki>
+
+    * Location-property <nowiki>{suggestedTag=Left, suggestedTag=Right, suggestedTag=Body-part}[Location can be scored for findings. Semiologic finding can also be characterized by the somatotopic modifier (i.e. the part of the body where it occurs). In this respect, laterality (left, right, symmetric, asymmetric, left greater than right, right greater than left), body part (eyelid, face, arm, leg, trunk, visceral, left/right) and centricity (axial (trunk), proximal limb, distal limb). (Source: Beniczky ea 2017, Sections 8 and 10)]</nowiki>


This is important! --

library_schemas/score/prerelease/HED_score_1.1.1.mediawiki

VisLab · 2024-04-08T13:12:26Z

Question: is it possible to have a top-level tag can have a free text or have a child. I think this is incorrect, but not sure how to fix:

** Provocative-factor <nowiki>{SuggestedTag=Hyperventilation}[Provocative factors are defined as transient and sporadic endogenous or exogenous elements capable of evoking/triggering seizures immediately following the exposure to it. (Source: Beniczky ea 2013.)]</nowiki>
    *** <nowiki># {takesValue, valueClass=textClass}[Free text.]</nowiki>
    *** Reflex-provoked
          **** <nowiki># {takesValue, valueClass=textClass}[Free text.]</nowiki>

A # node cannot have a sibling. Therefore this would be okay if Reflex-provoked weren't there. The solution is to add a node that is a sibling of Reflex-provoked: Other-provocative-factor under Provocative-factor that has the # child and is used for the text description. Otherwise you can suggest a tag for a description to be used with Provocative-factor.

library_schemas/score/prerelease/HED_score_1.1.1.mediawiki

dorahermes added 23 commits December 27, 2023 16:27

updating modulator section with references and some general text in t…

69ba21b

…he epilogue

updating background activity section with references

34e5a28

updating sleep and drowsiness section with references and moved arous…

15807dc

…al and frontal arousal pattern to correct section under physiological patterns (Table 14)

updating sleep and interictal sections, added Hisch ea 2013, correcte…

0045eff

…d nowiki tags up to interictal

updates episode section with all 2017 definitions, removed subtle sei…

09615b4

…zure, renamed electrographic seizure to electroencephalographic seizure, moved cataplexy to sleep related episodes and moved unclassified epileptic seizure to udner unknown onset seizure per 2017 supplement 1

physiological patterns and undertain significance patterns

9532452

added sources to artifact section

6c2f2a8

added nowiki tags throughout

d892d40

removed EMG, ECG and respiration feature

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other polygraphic channel finding (EMG, ECG, respiration) corrected, …

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…chaged numerical/takes value. Still need to revisit muscle side after going over finding properties/hemi.

starton with signal morphologies

3906ae2

corrections in periodic-discharge-morphology from Table 8, 2017 paper…

bd30a8c

…. May need further review.

added references to photic stiulation descriptions 2017 Table 7

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time related properties (Tables 6 and 8) added references and correct…

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…ions

added references to posterior dominant rhythm section.

4aaee5d

updates and renaming to seizure classification, including references …

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…and some changes throughout for suggestedTags, replacing positive and negative and symmetric etc with suggestedTags

semiology section added references and corrections

cbfbfad

semiology changes

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HED updates to remove left-right and simplify

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removed artifact tags, because these are in HED now

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rmoved some free text, because not mentioned in paper

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Merge remote-tracking branch 'upstream/main'

ead2236

removing Brain-region as suggested tag

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dorahermes requested review from VisLab and neuromechanist April 4, 2024 16:32

dorahermes added 2 commits April 4, 2024 12:21

fixes for suggested tags

26aadc4

minor bugfix

14fc5f8

VisLab reviewed Apr 6, 2024

View reviewed changes

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