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nwb_hackathons

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Integrate NWB:N with RAVE

RAVE visualizations via data imported from NWB format

https://raw.githubusercontent.com/beauchamplab/rave/dev-0.1.6.1/inst/third_party/NWB/nwb_import.R

Key Investigators

Project Description

The goal of this project is to create “R” code that will allow our ECOG package, RAVE, to read in (as a start) voltage traces from NWB files.

Objectives

Support importing NWB format and load Subject, epoch, and LFP into RAVE preprocess pipeline.

Approach and Plan

Create scripts to import subject, analogtraces, cortical surface, electrode, and trial

Progress and Next Steps

  1. [Done] Make clear about NWB basic structure
  2. [May 15] Import NWB to RAVE

Materials

NWB to RAVE Converter

NWB Converter to RAVE (Test script)

NWB ECoG extension

https://github.com/bendichter/nwbext_ecog

Installations

Install nwbext_ecog

In terminal,

pip install git+https://github.com/bendichter/nwbext_ecog

Install R and Rstudio

Open links below and install them according to your platform.

HDF5 library in R

In R, hdf5r provides IO for HDF5 files. To install it,

install.packages('hdf5r')

Install RAVE:

First, install R and RStudio

Open Rstudio, type the following command

install.packages('devtools')

# Install RAVE dev version
devtools::install_github('beauchamplab/rave@dev-0.1.6')

# Install builtin modules
devtools::install_github('beauchamplab/ravebuiltins')

Background and References