Merge pull request #136 from CodyCBakerPhD/paper

Adjust Dandiset convention
flatironinstitute · Mar 11, 2024 · 42b8e20 · 42b8e20
2 parents 4e3fe7a + 6e90466
commit 42b8e20
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/paper/joss/paper.md b/paper/joss/paper.md
@@ -28,7 +28,7 @@ bibliography: paper.bib
 
 # Summary
 
-Neurosift, a browser-based visualization tool, is designed for the interactive exploration of Neurodata Without Borders (NWB) files, whether stored locally, on remote servers, or within the Distributed Archives for Neurophysiology Data Integration (DANDI). NWB [@teeters2015neurodata; @rubel2022neurodata] is an open data standard for neurophysiology that enables the sharing, archiving, and analysis of various types of neurophysiology data. DANDI [@rubel2022neurodata] is a cloud-based platform that supports the storage, sharing, and analysis of neurophysiology data including NWB files. With Neurosift integration, users browsing DANDI can easily open any NWB file in the browser and explore its contents, including timeseries data, images, and more. Neurosift can also be used to browse the DANDI database or individual DANDIsets. Overall, Neurosift simplifies the visualization and exploration of complex NWB file structures, making it a valuable tool for neuroscientists.
+Neurosift, a browser-based visualization tool, is designed for the interactive exploration of Neurodata Without Borders (NWB) files, whether stored locally, on remote servers, or within the Distributed Archives for Neurophysiology Data Integration (DANDI). NWB [@teeters2015neurodata; @rubel2022neurodata] is an open data standard for neurophysiology that enables the sharing, archiving, and analysis of various types of neurophysiology data. DANDI [@rubel2022neurodata] is a cloud-based platform that supports the storage, sharing, and analysis of neurophysiology data including NWB files. With Neurosift integration, users browsing DANDI can easily open any NWB file in the browser and explore its contents, including timeseries data, images, and more. Neurosift can also be used to browse the DANDI database or individual Dandisets. Overall, Neurosift simplifies the visualization and exploration of complex NWB file structures, making it a valuable tool for neuroscientists.
 
 # Statement of need
 
@@ -41,7 +41,7 @@ Because files found on DANDI can often be large and unwieldy, various Python too
 Neurodata Without Borders files are structured hierarchically and encapsulate various "neurodata" types that reflect different aspects of neurophysiological experiments. These types range from *BehavioralEvents*, which record discrete actions or occurrences within experiments, to data structures like *Fluorescence*, *ImageSegmentation*, and *RoiResponseSeries*, which are key data types in optical neurophysiology. Other neurodata types include *ElectricalSeries* for electrophysiological signals and *Units* for spike times of neurons. Neurosift allows interactive navigation of this hierarchical structure (Figure 1) and provides plugin visualizations for many of these types (Figure 2). It also facilitates the creation of composite views by allowing users to select and synchronize multiple data types within the same interface (Figure 3). This synchronization extends to navigation actions such as zooming and panning, where different sub-windows, each displaying a different aspect of the data, maintain a shared time axis. These views can then be shared with others as a URL.
 
 <!-- https://neurosift.app/?p=/nwb&url=https://api.dandiarchive.org/api/assets/db8b5f00-05a1-4485-89ca-1767acf0ae36/download/&dandisetId=000409&dandisetVersion=draft -->
-![Screenshot of Neurosift displaying a NWB file from the 'IBL - Brain Wide Map' DANDIset (ID 000409), showcasing the tool's capability to navigate and visualize the hierarchical structure of neurophysiological data. Visible are expanded panels for ElectricalSeries and ImageSeries objects, alongside a TimeIntervals object and a Units table.](./images/neurosift-screenshot-1.png)
+![Screenshot of Neurosift displaying a NWB file from the 'IBL - Brain Wide Map' Dandiset (ID 000409), showcasing the tool's capability to navigate and visualize the hierarchical structure of neurophysiological data. Visible are expanded panels for ElectricalSeries and ImageSeries objects, alongside a TimeIntervals object and a Units table.](./images/neurosift-screenshot-1.png)
 
 <!-- https://neurosift.app/?p=/nwb&url=https://dandiarchive.s3.amazonaws.com/blobs/f76/b9f/f76b9f7e-38ed-43fb-8fd0-4cc272fcd8bd&dandisetId=000409&dandisetVersion=draft&tab=view:PSTH|/intervals/trials -->
 ![Interactive Peri-stimulus Time Histogram (PSTH) visualization in Neurosift, enabling users to select neural units, time alignment variables, and customize options like window range, histogram bin count, and grouping variables.](./images/neurosift-screenshot-3.png)