datajoint · guzman-raphael · Oct 21, 2022 · Oct 6, 2022 · Oct 7, 2022 · Oct 7, 2022
diff --git a/.gitignore b/.gitignore
@@ -1,2 +1,3 @@
 site
-.env
+.env
+.DS_Store
diff --git a/mkdocs.yaml b/mkdocs.yaml
@@ -6,7 +6,19 @@ repo_name: datajoint-company/datajoint-docs
 nav:
   - Welcome: welcome.md
   - Core: core.md
-  - Elements: elements.md
+  - Elements:
+    - Overview: elements/index.md
+    - Concepts: elements/concepts.md
+    - User Instructions: elements/user-instructions.md
+    - Developer Guide: elements/developer-instructions.md
+    - Management:
+        - Plan: elements/management/plan.md
+        - Team: elements/management/team.md
+        - Governance: elements/management/governance.md
+        - Selection: elements/management/selection.md
+        - Quality Assurance: elements/management/quality-assurance.md
+        - Outreach: elements/management/outreach.md
+        - Adopt: elements/management/adopt.md
   - Concepts:
     - Mantra: concepts/mantra.md
     - Query Language:
@@ -15,8 +27,18 @@ nav:
         - Query Backend: concepts/ref-integrity/query-backend.md
   - Glossary: glossary.md
   - Community:
+    - Support: community/support.md
+    - Events: community/events.md
     - Contribution: community/contribution.md
-
+    - Licenses: community/licenses.md
+    - Partnerships:
+      - NWB: community/partnerships/nwb.md
+      - DANDI: community/partnerships/dandi.md
+      - Suite2p: community/partnerships/suite2p.md
+      - Facemap: community/partnerships/facemap.md
+      - INCF: community/partnerships/incf.md
+  - Projects: projects.md
+  - Publications: publications.md
 # ---------------------------- STANDARD -----------------------------
 
 docs_dir: ./src

diff --git a/src/community/events.md b/src/community/events.md
@@ -0,0 +1,48 @@
+# Events
+
+Find us at the following workshops and conferences!
+
+## DataJoint Office Hours
+
+The DataJoint open source team are offering monthly Office Hours ([see details here](/community/support)). Sign up [here](https://docs.google.com/forms/d/e/1FAIpQLSeMhZtzQQWB47I8HfPcJ5_pFyMhZO284PLIblDfshe30dEuXw/viewform)!
+
+## Upcoming Workshops
+
++ Senses in Motion Symposium - October 17, 2022
+
++ Society for Neuroscience - November 12-16, 2022
+
+## Past Events
+
++ [NeuroDataReHack Hackathon](https://alleninstitute.org/what-we-do/brain-science/events-training/2022-neurodatarehack-hackathon/) - October 3-5, 2022
+
++ [Neuropixels and OpenScope Workshop](https://alleninstitute.org/what-we-do/brain-science/events-training/2022-neuropixels-openscope-workshop/2022-workshop-attendee-information/) - September 21-23, 2022
+
++ INCF Assembly - September 12-16, 2022
+
++ [Research Workflows Workshop](https://github.com/datajoint/sciops-workshop) - September 6-8, 2022
+
++ [NWB Hackathon User Days](https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK13_2022_Janelia/projects/PROJECTS.md) - July 24-27, 2022
+
++ [NIH BRAIN Initiative Meeting](https://braininitiative.nih.gov/News-Events/event/8th-annual-brain-initiative-meeting) - June 21-22, 2022
+
++ DataJoint Office Hours - May 20, 2022
+  + MATLAB/Python interoperability. [Video Link](https://www.youtube.com/watch?v=Y7JG2-B2O5U)
+
++ DataJoint Office Hours - April 27, 2022
+  + Filepath handling, `linking_module`, and `key` management in `make` functions.
+
++ [UCL Neuropixels Course](https://www.ucl.ac.uk/neuropixels/training/2021-neuropixels-course) - October 19, 2021
+
++ INCF Neuroinformatics Training Week - August 30 - September 2, 2021
+  + [Session 1 Recording](https://youtu.be/YOSNIW6vlQ8)
+  + [Session 2 Recording](https://youtu.be/dudHnEtT_30)
+  + [Session 3 Recording](https://youtu.be/KQlGYOBq7ow)
+  + [Session 4 Recording](https://youtu.be/1j_OQiQDJV0)
+
++ NYU ‘FAIR Thee Well’ Symposium - August 9-10, 2021
+  + [Sessions 1-3 Recordings](https://www.youtube.com/watch?v=EyKC-VPP93k&list=PLoxm1_YI8Y4Mv0wUYiRinKkmqTxx2_Z3Y)
+
++ Neuromatch Academy - July 29, 2021
+  + [Session 1 Recording](https://www.crowdcast.io/e/nma2021/32)
+  + [Session 2 Recording](https://www.crowdcast.io/e/nma2021/34)
diff --git a/src/community/licenses.md b/src/community/licenses.md
@@ -0,0 +1,10 @@
+# Licenses
+
+The resources are distributed under the following licenses which are included in the respective repositories:
+
+- DataJoint Python: LGPLv3 License
+- DataJoint MATLAB: MIT License
+- Pharus: MIT License
+- DataJoint LabBook: MIT License
+- DataJoint Sci-Viz: MIT License
+- DataJoint Elements and Workflows: MIT License
diff --git a/src/community/partnerships/dandi.md b/src/community/partnerships/dandi.md
@@ -0,0 +1,85 @@
+# DANDI
+
+## Sustainability Roadmap  between DataJoint Elements and DANDI Archive
+<br>
+<p align="center">
+  <img src="https://github.com/datajoint/datajoint-docs/blob/main/src/images/dandi-logo.png?raw=true" width="83" height="83">&nbsp;&nbsp;
+  <img src="https://github.com/datajoint/datajoint-docs/blob/main/src/images/elements-logo.png?raw=true" width="300" height="83">
+</p>  <br>
+
+## Aim
+**DataJoint Elements** and **The DANDI Archive (DANDI)** are two neuroinformatics initiatives in active development. The projects develop independently yet they have complementary aims and overlapping user communities. This document establishes key processes for coordinating development and communications in order to promote integration and interoperability across the two ecosystems.
+
+## Projects and Teams
+
+### DataJoint
+
+**DataJoint Elements** — https://datajoint.com/docs/elements/ — is a collection of open-source
+  reference database schemas and analysis workflows for neurophysiology experiments, 
+  supported by **DataJoint** — https://datajoint.com/docs/core/ — an open-source software 
+  framework. The project is funded by the NIH grant U24 NS116470 and led by Dr. Dimitri 
+  Yatsenko.
+
+The principal developer of DataJoint Elements and the DataJoint framework is the company
+DataJoint — https://datajoint.com.
+
+### Neurodata without Borders (NWB)
+
+**DANDI** - https://dandiarchive.org — is an archive for neurophysiology data, 
+providing neuroscientists with a common platform to share, archive, and process data. 
+The project is funded by the NIH grant R24 MH117295 and led by Dr. Satrajit S. Ghosh 
+and Dr. Yaroslav O. Halchenko.
+
+The principal developers of DANDI are at the Massachusetts Institute of Technology, 
+Dartmouth College, Catalyst Neuro, and Kitware.
+
+## General Principles
+
+### No obligation
+
+The developers of the two ecosystems acknowledge that this roadmap document creates no 
+contractual relationship between them but they agree to work together in the spirit of 
+partnership to ensure that there is a united, visible, and responsive leadership and to 
+demonstrate administrative and managerial commitment to coordinate development and 
+communications.
+
+### Coordinated Development
+
+The two projects will coordinate their development approaches to ensure maximum
+interoperability. This includes:
+
+- coordinated use of terminology and nomenclatures
+- support for testing infrastructure: unit testing and integration testing
+- a coordinated software release process and versioning
+- coordinated resolution of issues arising from joint use of the two tools
+
+### Points of Contact
+
+To achieve the aims of coordinated development, both projects appoint a primary point of
+contact (POC) to respond to questions relating to the integration and interoperability 
+of DataJoint Elements and DANDI.
+
+For 2022, the DataJoint Elements POC is Dr. Chris Brozdowski (cbroz@datajoint.com)
+
+For 2022, the DANDI POC is Dr.Satrajit Ghosh (satra@mit.edu)
+
+### Annual Review
+
+To achieve the aims of coordinated development, the principal developers conduct a 
+joint annual review of this roadmap document to ensure that the two programs are well 
+integrated and not redundant. The contents and resolutions of the review will be made 
+publicly available.
+
+### Licensing
+
+The two parties ensure that relevant software components are developed under licenses
+that avoid any hindrance to integration and interoperability between DataJoint Elements
+and DANDI.
+
+## Development Roadmap
+
+- Mechanism to upload to DANDI - Completed 2022 - 
+  [Element Interface DANDI module](https://github.com/datajoint/element-interface/blob/main/element_interface/dandi.py)
+
+- Documentation to upload to DANDI - Completed 2022 - 
+  [Jupyter notebook](https://github.com/datajoint/workflow-array-ephys/blob/main/notebooks/09-NWB-export.ipynb)
diff --git a/src/community/partnerships/facemap.md b/src/community/partnerships/facemap.md
@@ -0,0 +1,100 @@
+# Facemap
+
+## Sustainability Roadmap between DataJoint Elements and Facemap
+<br>
+<p align="center">
+  <img src="https://github.com/datajoint/datajoint-docs/blob/main/src/images/facemap-logo.png?raw=true" width="150" height="28">&nbsp;&nbsp;
+  <img src="https://github.com/datajoint/datajoint-docs/blob/main/src/images/elements-logo.png?raw=true" width="300" height="83">
+</p>
+<br />
+
+## Aim
+**DataJoint Elements** and **Facemap** are two neuroinformatics initiatives in active
+development. The projects develop independently yet they have complementary aims and
+overlapping user communities. This document establishes key processes for coordinating
+development and communications in order to promote integration and interoperability
+across the two ecosystems.
+
+## Projects and Teams
+
+### DataJoint
+
+**DataJoint Elements** — https://datajoint.com/docs/elements/ — is a collection of open-source
+  reference database schemas and analysis workflows for neurophysiology experiments, 
+  supported by **DataJoint** — https://datajoint.com/docs/core/ — an open-source software 
+  framework. The project is funded by the NIH grant U24 NS116470 and led by Dr. Dimitri 
+  Yatsenko.
+
+The principal developer of DataJoint Elements and the DataJoint framework is the company
+DataJoint — https://datajoint.com.
+
+### Facemap
+
+**Facemap** - https://github.com/MouseLand/facemap — is a pipeline for processing
+imaging data. The project is funded by HHMI Janelia Research Campus and led by
+Dr. Carsen Stringer and Atika Syeda.
+
+The principal developers of Facemap are at the Janelia Research Campus.
+
+## General Principles
+
+### No obligation
+
+The developers of the two ecosystems acknowledge that this roadmap document creates no
+contractual relationship between them but they agree to work together in the spirit of
+partnership to ensure that there is a united, visible, and responsive leadership and to
+demonstrate administrative and managerial commitment to coordinate development and
+communications.
+
+### Coordinated Development
+
+The two projects will coordinate their development approaches to ensure maximum
+interoperability. This includes:
+
+- coordinated use of terminology and nomenclatures
+- support for testing infrastructure: unit testing and integration testing
+- a coordinated software release process and versioning
+- coordinated resolution of issues arising from joint use of the two tools
+
+### Points of Contact
+
+To achieve the aims of coordinated development, both projects appoint a primary point of
+contact (POC) to respond to questions relating to the integration and interoperability 
+of DataJoint Elements and Facemap.
+
+For 2022, the DataJoint Elements POC is Dr. Tolga Dincer (tolga@datajoint.com)
+
+For 2022, the Facemap POC is Dr. Carsen Stringer (stringerc@janelia.hhmi.org)
+
+### Annual Review
+
+To achieve the aims of coordinated development, the principal developers conduct a joint
+annual review of this roadmap document to ensure that the two programs are
+well integrated and not redundant. The contents and resolutions of the review will be
+made publicly available.
+
+### Licensing
+
+The two parties ensure that relevant software components are developed under licenses
+that avoid any hindrance to integration and interoperability between DataJoint Elements 
+and Facemap.
+
+## Development Roadmap
+
+- Mechanism to import Facemap results - Completed 2022 - 
+[Element Facemap](https://github.com/datajoint/element-facemap/blob/0ccab4ec6731cd612e7cf61a221c64fb9bf22566/element_facemap/facial_behavior_estimation.py#L389-L405)
+
+- Mechanism to run Facemap within DataJoint Elements - Completed 2022 - 
+[Element Facemap](https://github.com/datajoint/element-facemap/blob/0ccab4ec6731cd612e7cf61a221c64fb9bf22566/element_facemap/facial_behavior_estimation.py#L259-L266)
+
+- Tutorials on running DataJoint Element with Facemap - Under development 
+
+- Integration tests to verify loading Facemap data - Under development
+
+- Integration tests to verify running Facemap - Under development
+
+## Citation
+
+If you use Facemap please cite 
+[Stringer*, Pachitariu*, et al., Science 2019](https://doi.org/10.1126%2Fscience.aav7893) in 
+your publications.
diff --git a/src/community/partnerships/incf.md b/src/community/partnerships/incf.md
@@ -0,0 +1,3 @@
+# INCF
+
+DataJoint is a [company member of INCF](https://www.incf.org/network/companies).
diff --git a/src/community/partnerships/nwb.md b/src/community/partnerships/nwb.md
@@ -0,0 +1,81 @@
+# NWB
+
+## Integrations between DataJoint Elements and Neurodata Without Borders 
+<br>
+<p align="center">
+  <img src="https://github.com/datajoint/datajoint-docs/blob/main/src/images/nwb-logo.png?raw=true" width="300" height="55">&nbsp;&nbsp;
+  <img src="https://github.com/datajoint/datajoint-docs/blob/main/src/images/elements-logo.png?raw=true" width="300" height="83">
+</p>  
+
+## Aim
+**DataJoint Elements** and **Neurodata Without Borders (NWB)** are two neuroinformatics 
+  initiatives in active development. The projects develop independently yet they have
+  complementary aims and overlapping user communities. This document establishes key
+  processes for coordinating development and communications in order to promote
+  integration and interoperability across the two ecosystems.
+
+## Projects and Teams
+
+### DataJoint
+
+**DataJoint Elements** — https://datajoint.com/docs/elements/ — is a collection of open-source
+  reference database schemas and analysis workflows for neurophysiology experiments, 
+  supported by **DataJoint** — https://datajoint.com/docs/core/ — an open-source software 
+  framework. The project is funded by the NIH grant U24 NS116470 and led by Dr. Dimitri 
+  Yatsenko.
+
+The principal developer of DataJoint Elements and the DataJoint framework is the company
+DataJoint — https://datajoint.com.
+
+### Neurodata without Borders (NWB)
+
+**NWB** - https://www.nwb.org — is a data standard for neurophysiology, providing
+  neuroscientists with a common standard to share, archive, use, and build analysis
+  tools for neurophysiology data. The project is funded by the NIH grant U24 NS120057
+  and led by Dr. Oliver Rubel (Lawrence Berkeley National Laboratory) and Dr. Benjamin
+  Dichter (Catalyst Neuro).
+
+The principal developers of NWB are the Lawrence Berkeley National Laboratory and
+Catalyst Neuro.
+
+## General Principles
+
+### No obligation
+
+The developers of the two ecosystems acknowledge that this roadmap document creates no contractual
+relationship between them but they agree to work together in the spirit of partnership
+to ensure that there is a united, visible, and responsive leadership and to demonstrate
+administrative and managerial commitment to coordinate development and communications.
+
+### Coordinated Development
+
+The two projects will coordinate their development approaches to ensure maximum
+interoperability. This includes:
+
+- coordinated use of terminology and nomenclatures
+- support for testing infrastructure: unit testing and integration testing
+- a coordinated software release process and versioning
+- coordinated resolution of issues arising from joint use of the two tools
+
+### Points of Contact
+
+To achieve the aims of coordinated development, both projects appoint a primary point of
+contact (POC) to respond to questions relating to the integration and interoperability
+of DataJoint Elements and NWB.
+
+For 2022, the DataJoint Elements POC is Dr. Chris Brozdowski (cbroz@datajoint.com)
+
+For 2022, the NWB POC is Dr. Ryan Ly (Lawrence Berkeley National Laboratory)
+
+### Annual Review
+
+To achieve the aims of coordinated development, the principal developers conduct a joint
+annual review of this roadmap document to ensure that the two programs are
+well integrated and not redundant. The contents and resolutions of the review will be
+made publicly available.
+
+### Licensing
+
+The two parties ensure that relevant software components are developed under licenses
+that avoid any hindrance to integration and interoperability between DataJoint Elements
+workflows and NWB utilities.
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		# INCF

		DataJoint is a [company member of INCF](https://www.incf.org/network/companies).