SCGB NWB Adoption

Developed NWB conversion tools for the DiCarlo lab's neuroscience datasets. The conversion pipeline processes data from Macaca mulatta (rhesus macaques), including Utah array recordings acquired using the Intan data acquisition system, behavioral data encoded in the MWorks format, and visual stimuli presented as images or video. Additionally, the pipeline incorporates an optimized spike-threshold crossing algorithm and tools for calculating peristimulus time histograms (PSTH).

Developed NWB conversion tools for the Jazayeri lab's primate neurophysiology datasets studying cognitive timing and mental navigation. The conversion pipeline handles complex neural recordings from multiple brain regions including dorsomedial frontal cortex and entorhinal cortex during sophisticated behavioral tasks.

Developed comprehensive NWB conversion tools for the Stavisky lab's brain-to-text decoding datasets. The conversion pipeline handles complex neural decoding data including RNN decoder outputs, language model predictions, and processed electrophysiology signals. Created custom visualization widgets for analyzing decoding performance, trial-aligned data, and temporal evolution of phoneme and word predictions. The tools support Redis-based data streaming and include extensive configuration options through YAML files.

Developed NWB conversion tools for the Datta lab's behavioral neuroscience datasets, featuring photometric recordings and optogenetic manipulations in mice. The conversion pipeline handles multi-modal data including fiber photometry signals, behavioral measurements, and closed-loop optogenetic stimulation data studying dopamine dynamics during spontaneous behavior.

Developed comprehensive NWB conversion tools for the Pinto lab's two-photon imaging datasets. The conversion pipeline handles Bruker Ultima microscope data, Suite2P segmentation outputs, and holographic stimulation experiments. Created a custom NWB extension (ndx-pinto-metadata) for storing ViRMEN experimental metadata, and the tools support both command-line and interactive notebook-based workflows for data conversion and analysis.

Developed NWB conversion tools for the Murthy lab's Drosophila neuroscience datasets. The conversion pipeline handles complex behavioral and neural data, including calcium imaging of visual neurons during courtship behavior, processed SLEAP joint position tracks, and song labels, supporting research into neural circuits underlying social behavior in fruit flies.

Developed NWB conversion tools for the Ahrens lab's whole-brain calcium imaging data in zebrafish. The project includes conversion of complex behavioral and neural recording datasets, including studies of glia-neuron interactions and behavioral state transitions. The data pipeline handles multi-modal integration of calcium imaging, behavioral measurements, and experimental metadata.

Developed NWB conversion tools for the Fee lab's neurophysiology datasets studying neural mechanisms of learning and behavior. The conversion pipeline supports complex data structures from electrophysiological recordings and behavioral measurements, with specialized interfaces for processing and analyzing neural activity patterns during behavioral tasks.

Developed NWB conversion tools for the Brody lab's neurophysiology datasets focused on decision-making and neural circuits. The project includes custom processing pipelines and utility code for converting experimental data to the standardized NWB format, with specialized Python-based conversion tools.

Developed comprehensive NWB conversion tools for the Shenoy lab's diverse motor neuroscience datasets. The conversion pipeline handles multiple experimental paradigms including center-out reaching tasks, Neuropixels recordings in monkeys, and maze navigation tasks. Created analysis and visualization pipelines for examining neural population dynamics during reaching and delay activity in premotor cortex. The tools support both direct streaming from DANDI and local data conversion workflows.

Developed comprehensive NWB conversion tools for the Movshon lab's diverse electrophysiology and visual neuroscience datasets. The conversion pipeline handles multiple data formats including Blackrock, OpenEphys, and SpikeGLX recordings, with integrated spike sorting through SpikeInterface. The tools support both command-line and graphical user interface workflows, enabling efficient processing of complex visual neuroscience experiments. The project facilitates the standardization of the lab's extensive visual cortex recordings, supporting their research into neural mechanisms of visual perception and motion processing.

Developed comprehensive NWB conversion tools for the Tank lab's behavioral and electrophysiology datasets. Created a custom NWB extension (ndx-tank-metadata) for storing experiment-specific metadata including maze configurations and rig parameters. The conversion pipeline integrates Neuropixels recordings with VirMen behavioral data, including detailed trial structure, behavioral metrics, and synchronized TTL events. The tools support extensive metadata handling and include specialized visualization widgets for behavioral analysis.

Developed NWB conversion tools for the International Brain Lab's standardized decision-making experiments, including custom NWB extensions for specialized data types. The conversion pipeline handles multi-modal behavioral and neural data from multiple research sites, integrating wheel movements, video recordings, and visual stimulation data across a large-scale collaboration.

Developed NWB conversion tools for the Buffalo lab's multi-modal neurophysiology data, handling both raw and processed neural recordings from Neuralynx systems, sorted spikes, and behavioral measurements in non-human primates doing hippocampal tasks. The conversion pipeline includes a graphical interface for metadata editing and supports various data formats including NCS, MAT, and NEX files.

Developed NWB conversion tools for the Giocomo lab's spatial navigation datasets, including tetrode and Neuropixel recordings from medial entorhinal cortex, and two-photon calcium imaging from hippocampal CA1. The conversion pipeline handles multi-modal data including neural recordings, virtual reality behavior, and head motion measurements.

Developed NWB conversion tools for the Axel lab's neurophysiology data, featuring both raw and processed data conversion capabilities. The project includes a comprehensive conversion pipeline with GUI tools for metadata editing and data visualization, supporting multiple data formats including NPZ and MAT files.