diff --git a/content/working-groups/_index.md b/content/working-groups/_index.md index be5edab..d778ef0 100644 --- a/content/working-groups/_index.md +++ b/content/working-groups/_index.md @@ -17,8 +17,9 @@ sections: NWB standard to integrate and leverage these resources for storing relevant metadata on the genotypes and genetic backgrounds of individual mice, linking neurophysiological data to the databases and literature that - characterize the experimental animals.

[NDX - Proposal] + characterize the experimental animals.

+ + [NDX Proposal] image: /images/genotype.png - title: Spatial coordinates representation content: Reporting of spatial coordinates within the brain is a complex problem, @@ -31,7 +32,9 @@ sections: stimuli) within a spatial coordinate system. This type of standardization will facilitate the programmatic integration and comparison of data represented in NWB with other datasets that have been mapped to the same - coordinate system.

[NDX Proposal] + coordinate system.

+ + [NDX Proposal] image: /images/spatial.png - title: Behavioral task representation content: Behavioral tasks are an increasingly important component in @@ -45,22 +48,10 @@ sections: building a standard markup language (BEADL) to build state machine descriptions of task logic and control flow within a trial and across trials in a session, including tools for visualization, construction, and - emulation of tasks from these machine-readable descriptions.

[NDX Proposal] + emulation of tasks from these machine-readable descriptions.

+ + [NDX Proposal] image: /images/behavioral.png - - title: Spatial coordinates representation - content: Reporting of spatial coordinates within the brain is a complex problem, - requiring registration between data collected with multiple recording - modalities (imaging, probes) and across brain preparations (in vivo whole - brain, slice) with common reference atlases and controlled vocabularies. - The focus of this working group is to create an NWB extension to capture - spatial coordinate systems, spatial mappings between two systems, and the - representation of objects (e.g. cells, probes, injections, and optogenetic - stimuli) within a spatial coordinate system. This type of standardization - will facilitate the programmatic integration and comparison of data - represented in NWB with other datasets that have been mapped to the same - coordinate system.

[NDX Proposal] - image: /images/spatial.png - title: External Working Groups bg_white: true content: NWB team members also participate in numerous external working groups. @@ -68,7 +59,6 @@ sections: NWB, they all involve components that are relevant to NWB and commonly use NWB or are creating a Neurodata Extension (NDX) as part of their charge. - image: /images/external-group.png - title: INCF Working Group on standardization of a directory structure containing neurophysiology data bg_white: true @@ -81,9 +71,9 @@ sections: facilitate obtaining reproducible research and data sharing following the FAIR principles. In addition to data structures, the working group will discuss what experimental metadata is essential, and which formats and - structures are appropriate for different metadata types.

Working Groups Page - image: /images/incf-group.png + structures are appropriate for different metadata types.

+ Working Group Page + image: /images/incf-wg-genaral-image.jpg - title: INCF Electrophysiology Stimulation Ontology Working Group bg_white: true content: Stimulus protocols are an essential component of neurophysiological @@ -100,8 +90,10 @@ sections: protocols use very similar protocols with waveforms that have stereotyped profiles (e.g., long steps, ramps, chirps). This working group will also draft recommendations for representation in NWB of parameterized stimuli - beyond 1-D waveforms.

Working Groups Page - image: /images/incf-ontology-group.png + beyond 1-D waveforms.

+ + Working Group Page + image: /images/incf-wg-genaral-image.jpg - title: Standardization of data/file formats for simulation outputs in computational neuroscience bg_white: true @@ -115,7 +107,8 @@ sections: data. Tasks for this working group include compiling a list of existing formats, defining evaluation criteria and evaluating the different formats, and identifying avenues for improving interoperability.

- Source, NDX + Source, + NDX image: /images/simulation.png past_groups: enable: true @@ -136,13 +129,23 @@ past_groups: title: Outcomes content: The working group drafted an extension for the NWB schema that implements these tables for testing and evaluation of the proposed changes - (see “Source” “NDX” “NDX - Proposal” “YouTube”). The proposed extension underwent + (see Source, + NDX, + + NDX Proposal, YouTube + ). The proposed extension underwent community review and has been merged with NWB after completion of the review. The new structures developed by this working group have been - released as part of NWB Schema version 2.4 and + released as part of + + NWB Schema version 2.4 and corresponding PyNWB 2.0 and MatNWB 2.4.0.0. These new features are - documented in the Intracellular electrophysiology tutorial - as part o PyNWB and AlignedDynamicTable tutorial and AlignedDynmaicTable schema as part of HDMF. + documented in the + + Intracellular electrophysiology tutorial + as part of PyNWB and the + + AlignedDynamicTable tutorial and + AlignedDynmaicTable + schema as part of HDMF. --- diff --git a/images/external-group.png b/images/external-group.png deleted file mode 100644 index 4d6dc5f..0000000 Binary files a/images/external-group.png and /dev/null differ diff --git a/images/incf-group.png b/images/incf-group.png deleted file mode 100644 index 9ae42c4..0000000 Binary files a/images/incf-group.png and /dev/null differ diff --git a/images/incf-ontology-group.png b/images/incf-ontology-group.png deleted file mode 100644 index 7bb24f6..0000000 Binary files a/images/incf-ontology-group.png and /dev/null differ diff --git a/images/incf-wg-genaral-image.jpg b/images/incf-wg-genaral-image.jpg new file mode 100644 index 0000000..379334a Binary files /dev/null and b/images/incf-wg-genaral-image.jpg differ diff --git a/static/images/external-group.png b/static/images/external-group.png deleted file mode 100644 index 4d6dc5f..0000000 Binary files a/static/images/external-group.png and /dev/null differ diff --git a/static/images/incf-group.png b/static/images/incf-group.png deleted file mode 100644 index 9ae42c4..0000000 Binary files a/static/images/incf-group.png and /dev/null differ diff --git a/static/images/incf-ontology-group.png b/static/images/incf-ontology-group.png deleted file mode 100644 index 7bb24f6..0000000 Binary files a/static/images/incf-ontology-group.png and /dev/null differ diff --git a/static/images/incf-wg-genaral-image.jpg b/static/images/incf-wg-genaral-image.jpg new file mode 100644 index 0000000..379334a Binary files /dev/null and b/static/images/incf-wg-genaral-image.jpg differ