Repositories list

• lunch-and-learn

  Public
  Code that is shared during lunch and learn sessions

  Jupyter Notebook

  •1•0•5•2•Updated Jun 17, 2025Jun 17, 2025

• dsst-defacing-pipeline

  Public
  Defacing algorithm to improve and evaluate accuracy for large datasets.

  Python

  •2•3•16•2•Updated Jun 17, 2025Jun 17, 2025

• dsst-rtd

  Public
  DSST's readthedocs site repo.

  0•0•0•0•Updated Jun 16, 2025Jun 16, 2025

• fast-fmm-rpy2

  Public
  Python wrapper for the R fastFMM package

  Python

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated Jun 12, 2025Jun 12, 2025

• ome_compare

  Public
  Code to compare performance of OME-TIFF vs OME-ZARR

  Jupyter Notebook

  •

  Creative Commons Zero v1.0 Universal

  •0•0•1•0•Updated Jun 12, 2025Jun 12, 2025

• neural-analysis

  Public
  This code is part of a data analysis and modeling pipeline for neuroscience or behavioral data. It includes functions for data preprocessing, visualization, and statistical analysis. The specific usage of these functions and the details of the data being analyzed would depend on the context in which this code is applied.

  Python

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated May 30, 2025May 30, 2025

• labarchives-api

  Public
  A Python wrapper for the LabArchives Electronic Lab Notebook API

  Python

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated May 29, 2025May 29, 2025

• olmocr_testing

  Public
  Code used to test the inference performance of AI2's olmOCR model preview

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated May 23, 2025May 23, 2025

• dsst-etl

  Public
  importing leo's code to get around LFS restriction on forks

  Python

  •

  Creative Commons Zero v1.0 Universal

  •1•0•4•1•Updated May 22, 2025May 22, 2025

• abcd-fasttrack2bids

  Public
  Python

  •2•0•16•0•Updated Apr 21, 2025Apr 21, 2025

• DTI-Phenotyping

  Public
  Scripts used to curate and analyze the DTI-Phenotyping dataset.

  R

  •

  Creative Commons Zero v1.0 Universal

  •1•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• tdt_reader

  Public
  Modified version of the tdt TDTbin2py module

  Python

  •

  GNU General Public License v3.0

  •0•0•1•0•Updated Apr 9, 2025Apr 9, 2025

• DSST-ZarrNii

  Public
  Code for interconversion between Zarr and Nii

  Creative Commons Zero v1.0 Universal

  •0•0•1•0•Updated Mar 7, 2025Mar 7, 2025

• cmn-website

  Public
  HTML

  •3•0•0•0•Updated Mar 5, 2025Mar 5, 2025

• Pub-Data-Parser

  Public
  Creative Commons Zero v1.0 Universal

  •0•0•1•0•Updated Feb 21, 2025Feb 21, 2025

• utils

  Public
  A repository containing code that is meant to demonstrate common DSST tasks

  Python

  •0•0•0•0•Updated Feb 14, 2025Feb 14, 2025

• photometry_analysis

  Public
  Streamlined analysis of fiber photometry code in a python package

  Creative Commons Zero v1.0 Universal

  •0•0•1•0•Updated Feb 14, 2025Feb 14, 2025

• uv

  Public
  An extremely fast Python package and project manager, written in Rust.

  Rust

  •

  Apache License 2.0

  •1.7k•0•0•0•Updated Feb 4, 2025Feb 4, 2025

• dataSci_job_ad_2024

  Public
  TeX

  •0•1•0•0•Updated Dec 17, 2024Dec 17, 2024

• nda-bids-upload

  Public
  For uploading BIDS data to the NDA.

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •1•0•2•1•Updated Dec 17, 2024Dec 17, 2024

• file-mapper

  Public
  An easy tool to copy/move/symlink files from one directory to the other!

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •5•0•0•0•Updated Dec 10, 2024Dec 10, 2024

• Git-Skits

  Public
  Code with video demos of common data science tools used at the NIMH

  Jupyter Notebook

  •

  Apache License 2.0

  •0•0•0•0•Updated Nov 25, 2024Nov 25, 2024

• osm

  Public
  OpenSciMetrics (OSM) applies NLP and LLM-based metrics and indicators related to transparency, data sharing, rigor, and open science on biomedical publications.

  Python

  •

  Creative Commons Zero v1.0 Universal

  •3•1•9•3•Updated Nov 13, 2024Nov 13, 2024

• Brain-Atlas-Checker

  Public
  A collection of scripts that checks the masks generated by aligning images to the Allen Brain Atlas

  Python

  •

  GNU General Public License v3.0

  •0•0•1•0•Updated Oct 30, 2024Oct 30, 2024

• nimh-dsst.github.io

  Public
  Redirect for the NIMH IRP Data Science and Sharing Team

  HTML

  •1•0•0•0•Updated Sep 19, 2024Sep 19, 2024

• osm-rtrans-etl

  Public
  Extract, Transform, and load data associated with the rtransparent publication into a MongoDB database

  Dockerfile

  •0•0•0•0•Updated Jul 28, 2024Jul 28, 2024

• nda-study-1887

  Public
  Scripts and data files used to convert anatomical MRI dicom data of the Autism Subtypes study to BIDS format, and to upload the dataset to NIMH Data Archive

  Python

  •0•0•0•0•Updated Jun 12, 2024Jun 12, 2024

• bids-validator-comparator

  Public
  A small set of scripts to BIDS-validate and compare validator version outputs for OpenNeuro datasets.

  Python

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated May 14, 2024May 14, 2024

• sharestats-leo-bsc

  Public
  Jupyter Notebook

  •1•0•0•0•Updated May 8, 2024May 8, 2024

• OpenCogData

  Public
  Collection of publicly available cognitive task datasets

  cognitive-sciencecomputational-psychiatryopen-datasets+ 1cognitive-neuroscience

  JavaScript

  •

  MIT License

  •3•9•0•2•Updated Apr 17, 2024Apr 17, 2024