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stardist Public
Forked from stardist/stardistStarDist - Object Detection with Star-convex Shapes
Python BSD 3-Clause "New" or "Revised" License UpdatedDec 4, 2025 -
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PyNM Public
Forked from ppsp-team/PyNMLightweight Python implementation of Normative Modelling
Jupyter Notebook BSD 3-Clause "New" or "Revised" License UpdatedOct 17, 2025 -
ClearMap Public
Forked from ClearAnatomics/ClearMapClearMap 2 with WobblyStitcher, TubeMap and CellMap
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multiview-stitcher Public
Forked from multiview-stitcher/multiview-stitcherA toolbox for registering / fusing / stitching large multi-view / multi-positioning image datasets in 2-3D.
Jupyter Notebook BSD 3-Clause "New" or "Revised" License UpdatedJun 18, 2025 -
brainglobe-heatmap Public
Forked from brainglobe/brainglobe-heatmapRendering anatomical heatmaps with brainrender and matplotlib
Python MIT License UpdatedApr 8, 2025 -
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snakebids Public
Forked from khanlab/snakebidsSnakemake + BIDS
Python MIT License UpdatedDec 12, 2024 -
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snakebatch Public template
Customizeable workflow for batching multiple snakebids apps or bids apps
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heudiconv Public
Forked from nipy/heudiconvFlexible DICOM conversion into structured directory layouts
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pybids Public
Forked from bids-standard/pybidsPython tools for querying and manipulating BIDS datasets.
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kslurm Public
Forked from khanlab/kslurmHelper scripts and wrappers for running commands on SLURM compute clusters.
Python MIT License UpdatedSep 23, 2024 -
compare_spiral_dwi Public
Snakemake workflow for comparing 7T spiral vs non-spiral dwi
Jupyter Notebook UpdatedSep 2, 2024 -
BigStitcher-Spark Public
Forked from JaneliaSciComp/BigStitcher-SparkRunning compute-intense parts of BigStitcher distributed
Java BSD 2-Clause "Simplified" License UpdatedMay 22, 2024 -
snakemake-executor-plugin-googlebatch Public
Forked from snakemake/snakemake-executor-plugin-googlebatchSnakemake executor plugin for Google Batch (under development)
Python MIT License UpdatedApr 13, 2024 -
conda-snakebids-builds Public
assortment of conda build files to get snakebids built
UpdatedApr 12, 2024 -
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marm94T-gradients Public
Gradients analysis for marm zona project
Jupyter Notebook UpdatedFeb 29, 2024 -
DiffSimGen Public
Forked from Bradley-Karat/DiffSimGenDiffSimGen (Diffusion Simulator Generator)
Jupyter Notebook UpdatedFeb 23, 2024 -
clark_maguire_bidsify Public
BIDS conversion of Clark and Maguire 2023 dataset
Python UpdatedSep 16, 2023 -
marm94T-bids-smk Public
Snakemake workflow for converting 9.4T marmoset data to bids (for zona protocol with MP2RAGE, MTsat, DWI)
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scattr Public
Forked from khanlab/scattrBIDS app for structural connectivity between targeted regions
Python MIT License UpdatedAug 31, 2023 -
postproc-smk Public
WIP - Simple Post-BIDS processing pipeline with snakemake
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scona Public
Forked from WhitakerLab/sconaCode to analyse structural covariance brain networks using python.
Jupyter Notebook MIT License UpdatedJul 24, 2023 -
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