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    177 repositories

    • qsirecon

      Public
      Reconstruction of preprocessed q-space images (dMRI)
      mribidsdwidiffusion-mribids-formatdmribidsappbids-apps
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•58•1•Updated Nov 9, 2024Nov 9, 2024

    • qsiprep

      Public
      Preprocessing of diffusion MRI
      pipelinesdistortion-correctionbidsmotion-correctiondiffusion-mridenoising-images
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •58•140•110•11•Updated Nov 8, 2024Nov 8, 2024

    • aslprep

      Public
      Preprocessing of arterial spin labeling (ASL) data
      aslcbfbids-apps
      Python
      •
      Other
      •15•38•38•6•Updated Nov 7, 2024Nov 7, 2024

    • GRMPY_clinical_data

      Public
      0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • xcp_d

      Public
      Post-processing of fMRIPrep, NiBabies, and HCP outputs
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •26•78•47•8•Updated Nov 4, 2024Nov 4, 2024

    • CuBIDS

      Public
      Curation of BIDS (CuBIDS): A sanity-preserving software package for processing BIDS datasets.
      neuroscienceneuroimagingneuroinformaticspython-packagedata-curationneuroscience-methodsneuroimaging-data-sciencedata-organization
      Python
      •
      MIT License
      •9•20•28•8•Updated Nov 4, 2024Nov 4, 2024

    • PennLINC.github.io

      Public
      Documentation for PennLINC
      HTML
      •
      MIT License
      •15•3•28•2•Updated Oct 25, 2024Oct 25, 2024

    • qsirecon_build

      Public
      Docker build for QSIRecon
      Dockerfile
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • ingress2qsirecon

      Public
      A tool for ingressing outputs from other processing pipelines (e.g., HCP, UKB) for use in QSIRecon.
      dwimri-reconstruction
      Python
      •
      MIT License
      •1•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • ingress2xcpd

      Public
      A tool for ingressing outputs from other processing pipelines (e.g., HCP, UKB) for use in XCP_D.
      Python
      •
      MIT License
      •1•0•0•0•Updated Oct 23, 2024Oct 23, 2024

    • babs

      Public
      BIDS App Bootstrap (BABS)
      Python
      •
      MIT License
      •6•6•51•4•Updated Oct 18, 2024Oct 18, 2024

    • thalamocortical_development

      Public
      https://pennlinc.github.io/thalamocortical_development/
      R
      •1•0•0•0•Updated Oct 16, 2024Oct 16, 2024

    • xcpd_build

      Public
      Builds a base docker image for xcp-d
      Dockerfile
      •2•2•4•0•Updated Oct 15, 2024Oct 15, 2024

    • open-physio-data

      Public
      Open fMRI datasets with concurrent physio data. Focused on physio measures that correlate with autonomic state.
      MIT License
      •0•0•3•0•Updated Oct 15, 2024Oct 15, 2024

    • smripost-linc

      Public
      Aggregate interesting derivatives from sMRIPrep/Freesurfer derivatives
      BSD 3-Clause "New" or "Revised" License
      •0•0•6•0•Updated Oct 14, 2024Oct 14, 2024

    • TheWay

      Public
      Boilerplate scripts for running workflows on Penn clusters
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •11•5•2•12•Updated Sep 26, 2024Sep 26, 2024

    • labSlides

      Public
      1•3•0•0•Updated Sep 24, 2024Sep 24, 2024

    • mebold-curation

      Public
      Code to prepare complex-valued multi-echo fMRI data acquired with the CMRR sequence for analysis.
      Python
      •
      MIT License
      •0•0•0•0•Updated Sep 19, 2024Sep 19, 2024

    • macedo_tracometry

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Sep 17, 2024Sep 17, 2024

    • pNet

      Public
      pNet is a Python package for computing personalized, sparse, non-negative large-scale functional networks from functional magnetic resonance imaging (fMRI) data, particularly resting state fMRI data.
      Python
      •1•0•0•0•Updated Sep 17, 2024Sep 17, 2024

    • msanxiety

      Public
      R
      •1•0•0•0•Updated Sep 12, 2024Sep 12, 2024

    • qsiprep_build

      Public
      Builds the dependencies for qsiprep
      Dockerfile
      •
      Apache License 2.0
      •2•2•1•0•Updated Sep 6, 2024Sep 6, 2024

    • AtlasPack

      Public
      Combined cortical/subcortical atlases for xcp-d and qsiprep
      HTML
      •2•9•4•1•Updated Aug 28, 2024Aug 28, 2024

    • qsibuild_dependencies

      Public
      Shell
      •
      Apache License 2.0
      •0•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • open-neuroendocrine-data

      Public
      Open datasets with anatomical and functional MRI, as well as hormone measures.
      MIT License
      •0•0•11•0•Updated Jul 30, 2024Jul 30, 2024

    • network_replication

      Public
      HTML
      •
      MIT License
      •1•6•0•0•Updated Jul 27, 2024Jul 27, 2024

    • Vogel_PLS_Tx-Space

      Public
      Data and code for Vogel et al., Transcriptomic Gradients paper
      Jupyter Notebook
      •
      MIT License
      •2•6•0•0•Updated Jun 15, 2024Jun 15, 2024

    • paper-template

      Public template
      A template repository for scientific projects.
      Jupyter Notebook
      •
      MIT License
      •1•0•8•1•Updated Jun 12, 2024Jun 12, 2024

    • qsirecon-bad

      Public
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jun 4, 2024Jun 4, 2024

    • fw-heudiconv

      Public
      Heuristic-based Data Curation on Flywheel
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •11•6•6•1•Updated May 6, 2024May 6, 2024