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@nimh-dsst National Institute of Mental Health Data Science & Sharing Team

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    55 repositories

    • 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
      •4•1•12•4•Updated Sep 15, 2025Sep 15, 2025

    • paper-abmt2

      Public
      Shell
      •0•0•0•0•Updated Sep 15, 2025Sep 15, 2025

    • rtransparent

      Public
      The rtransparent R package.
      R
      •
      GNU General Public License v3.0
      •11•0•2•1•Updated Sep 12, 2025Sep 12, 2025

    • fast-fmm-rpy2

      Public
      Python wrapper for the R fastFMM package
      Python
      •
      Creative Commons Zero v1.0 Universal
      •0•0•1•0•Updated Aug 21, 2025Aug 21, 2025

    • pmcoa

      Public
      Code for working with PMC OA data
      Shell
      •0•0•2•0•Updated Aug 15, 2025Aug 15, 2025

    • dsst-rtd

      Public
      DSST's readthedocs site repo.
      1•0•0•0•Updated Aug 12, 2025Aug 12, 2025

    • lunch-and-learn

      Public
      Code that is shared during lunch and learn sessions
      Jupyter Notebook
      •1•0•4•1•Updated Aug 12, 2025Aug 12, 2025

    • bids-guidelines

      Public
      A work-in-progress BIDS App for judging datasets against established guidelines.
      Python
      •0•0•0•0•Updated Aug 12, 2025Aug 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 Jun 25, 2025Jun 25, 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 23, 2025Jun 23, 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

    • 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
      •2k•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
      •2•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

    • 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