AllenNeuralDynamics

AllenNeuralDynamics/aind-software-docs

Centralized documentation repository for Scientific Computing, publishes to RTD

Stars: 1
Forks: 0
Open beginner issues: 0
Indexed issues: 38
Avg merge: 1d 6h
Merged PRs (30d): 7

Dominant language: Python
License: MIT
Last GitHub push: Sep 11, 2026
Latest indexed: Sep 13, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed

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38 issues indexed so far

Clarify the relationship between acquisition.json and instrument.json Open

AllenNeuralDynamics/aind-software-docs#45 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Clarify language around instrument ID in `prepare_before_acquisition.md` Open

AllenNeuralDynamics/aind-software-docs#46 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
prepare metadata needs some information on how to actual create metadata Open

AllenNeuralDynamics/aind-software-docs#50 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
modality-specific process labels Open

AllenNeuralDynamics/aind-software-docs#54 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Capsule versioning policy Open

AllenNeuralDynamics/aind-software-docs#64 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Create simple pipeline versioning policy Open

AllenNeuralDynamics/aind-software-docs#65 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Migrate electrophysiology sharepoint page to software docs Open

AllenNeuralDynamics/aind-software-docs#73 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Create analysis diagram Open

diagram

AllenNeuralDynamics/aind-software-docs#87 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
change issue templates to something more appropriate Open

AllenNeuralDynamics/aind-software-docs#101 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
High level diagram for lab management Open

AllenNeuralDynamics/aind-software-docs#110 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
DF use of lab management system Open

AllenNeuralDynamics/aind-software-docs#111 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Highlight roles and responsibilities on high and mid-level diagrams Open

AllenNeuralDynamics/aind-software-docs#113 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Highlight where the DF refactor would need to change to meet proposed architecture guidelines Open

AllenNeuralDynamics/aind-software-docs#114 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Add glossary terms/defs Open

documentation

AllenNeuralDynamics/aind-software-docs#125 · 1 comment · 0 reactions · 2 assignees · Indexed Sep 13, 2026
Wrong function signature in dynamic foraging architecture drawing Open

AllenNeuralDynamics/aind-software-docs#135 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
CCF and brainglobe docs Open

AllenNeuralDynamics/aind-software-docs#140 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
more complete navigation / preventing orphaned pages Open

AllenNeuralDynamics/aind-software-docs#150 · 4 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Make a general 'tools' page and/or rename the Scientific Computing Teams page Open

AllenNeuralDynamics/aind-software-docs#152 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
How to convert internal -> external assets (publication standards) Open

AllenNeuralDynamics/aind-software-docs#153 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
link out to file standards repo Open

AllenNeuralDynamics/aind-software-docs#154 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Onboarding intro about what the names mean (metadata core files, etc) Open

AllenNeuralDynamics/aind-software-docs#155 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Remove redundant content from SharePoint Open

AllenNeuralDynamics/aind-software-docs#163 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
analysis framework docs Open

AllenNeuralDynamics/aind-software-docs#165 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
break out project metadata lookup tools to separate page Open

AllenNeuralDynamics/aind-software-docs#171 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
updates to scientist-derived data page Open

AllenNeuralDynamics/aind-software-docs#172 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Recommended workflow for coordinating metadata from different modalities Open

AllenNeuralDynamics/aind-software-docs#174 · 3 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Add instructions for using Asta on Code Ocean Open

AllenNeuralDynamics/aind-software-docs#177 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
add diagram documentation Open

AllenNeuralDynamics/aind-software-docs#184 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
tracking vs logging Open

AllenNeuralDynamics/aind-software-docs#185 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Create instructions for how to initiate a pipeline run programmatically Open

AllenNeuralDynamics/aind-software-docs#191 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Clarify multimodal experiment coordination/correlation/metadata in diagrams Open

AllenNeuralDynamics/aind-software-docs#197 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Create a diagram for NWB file combining logic Open

AllenNeuralDynamics/aind-software-docs#200 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Need documentation on fixing metadata Open

AllenNeuralDynamics/aind-software-docs#203 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Add detail on aind-scratch-data assets for scientist-derived data Open

AllenNeuralDynamics/aind-software-docs#204 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
rebrand docs pages Open

AllenNeuralDynamics/aind-software-docs#205 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
update outreach events page Open

AllenNeuralDynamics/aind-software-docs#206 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Document Pipeline Standards for multi-backend support Open

AllenNeuralDynamics/aind-software-docs#214 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 13, 2026
Document the S3 / DocDB / Code Ocean data-asset contract and consistency expectations Open

AllenNeuralDynamics/aind-software-docs#217 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 13, 2026

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