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References from A software ecosystem for brain tractometry processing, analysis, and insight. Local targets link to admitted publications; unresolved targets remain external evidence.
Clarifying human white matter
10.1146/annurev-neuro-070815-013815 · 2016 · External reference
Quantitative mapping of the brain’s structural connectivity using diffusion MRI tractography: a review
10.1016/j.neuroimage.2021.118870 · 2022 · External reference
The WU-Minn Human Connectome Project: an overview
10.1016/j.neuroimage.2013.05.041 · 2013 · External reference
The Adolescent Brain Cognitive Development Study
10.1111/jora.12374 · 2018 · External reference
PASTA: pointwise assessment of streamline tractography attributes
10.1002/mrm.20484 · 2005 · External reference
Along-tract statistics allow for enhanced tractography analysis
10.1016/j.neuroimage.2011.11.004 · 2012 · External reference
Tract profiles of white matter properties: automating fiber-tract quantification
10.1371/journal.pone.0049790 · 2012 · External reference
The challenge of mapping the human connectome based on diffusion tractography
10.1038/s41467-017-01285-x · 2017 · External reference
Common misconceptions, hidden biases and modern challenges of dMRI tractography
10.1088/1741-2552/ab6aad · 2020 · External reference
Brain connections derived from diffusion MRI tractography can be highly anatomically accurate-if we know where white matter pathways start, where they end, and where they do not go
10.1007/s00429-020-02129-z · 2020 · External reference
Evaluating the accuracy of diffusion MRI models in white matter
10.1371/journal.pone.0123272 · 2015 · External reference
On modeling
10.1002/mrm.27101 · 2018 · External reference
Challenges for biophysical modeling of microstructure
10.1016/j.jneumeth.2020.108861 · 2020 · External reference
Evaluating the Reliability of human brain white matter tractometry
2021 · External reference
Dipy, a library for the analysis of diffusion MRI data
10.3389/fninf.2014.00008 · 2014 · External reference
FURY: advanced scientific visualization
10.21105/joss.03384 · 2021 · External reference
Scikit-learn: machine learning in Python
2011 · External reference
Unresolved reference
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PyTorch: an imperative style, high-performance deep learning library
2019 · External reference
The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments
10.1038/sdata.2016.44 · 2016 · External reference
QSIPrep: an integrative platform for preprocessing and reconstructing diffusion MRI data
10.1038/s41592-021-01185-5 · 2021 · External reference
Multidimensional analysis and detection of informative features in human brain white matter
10.1371/journal.pcbi.1009136 · 2021 · External reference
A browser-based tool for visualization and analysis of diffusion MRI data
10.1038/s41467-018-03297-7 · 2018 · External reference
Convolutional neural network-based classification of glaucoma using optic radiation tissue properties
10.1038/s43856-024-00496-w · 2024 · External reference
White matter myelination during early infancy is linked to spatial gradients and myelin content at birth
10.1038/s41467-022-28326-4 · 2022 · External reference
Human white matter myelinates faster in utero than ex utero
10.1073/pnas.2303491120 · 2023 · External reference
NeuroLibre : A preprint server for full-fledged reproducible neuroscience
2022 · External reference
10.55458/neurolibre.00037
10.55458/neurolibre.00037 · External reference
Estimation of the effective self-diffusion tensor from the NMR spin echo
10.1006/jmrb.1994.1037 · 1994 · External reference
Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI
10.1006/jmrb.1996.0086 · 1996 · External reference
Diffusional kurtosis imaging: the quantification of non-gaussian water diffusion by means of magnetic resonance imaging
10.1002/mrm.20508 · 2005 · External reference
Diffusional Kurtosis imaging in the diffusion imaging in Python project
10.3389/fnhum.2021.675433 · 2021 · External reference
Robust determination of the fibre orientation distribution in diffusion MRI: non-negativity constrained super-resolved spherical deconvolution
10.1016/j.neuroimage.2007.02.016 · 2007 · External reference
Probabilistic fiber tracking using the residual bootstrap with constrained spherical deconvolution
10.1002/hbm.21032 · 2011 · External reference
Anisotropic power maps: a diffusion contrast to reveal low anisotropy tissues from HARDI data.
2014 · External reference
Symmetric diffeomorphic image registration with cross-correlation: evaluating automated labeling of elderly and neurodegenerative brain
10.1016/j.media.2007.06.004 · 2008 · External reference
MRtrix3: A fast, flexible and open software framework for medical image processing and visualisation
10.1016/j.neuroimage.2019.116137 · 2019 · External reference
Unresolved reference
External reference
Recognition of white matter bundles using local and global streamline-based registration and clustering
10.1016/j.neuroimage.2017.07.015 · 2018 · External reference
QuickBundles, a method for tractography simplification
10.3389/fnins.2012.00175 · 2012 · External reference
Automated anatomical labeling of activations in SPM using a macroscopic anatomical parcellation of the MNI MRI single-subject brain
10.1006/nimg.2001.0978 · 2002 · External reference
Population-averaged atlas of the macroscale human structural connectome and its network topology
10.1016/j.neuroimage.2018.05.027 · 2018 · External reference
Controlling the false discovery rate: a practical and powerful approach to multiple testing
10.1111/j.2517-6161.1995.tb02031.x · 1995 · External reference
The corticospinal tract profile in amyotrophic lateral sclerosis
10.1002/hbm.23412 · 2017 · External reference
The lasso method for variable selection in the Cox model
10.1002/(sici)1097-0258(19970228)16:4<385::aid-sim380>3.0.co;2-3 · 1997 · External reference
Hierarchical generalized additive models in ecology: an introduction with mgcv
10.7717/peerj.6876 · 2019 · External reference
Unresolved reference
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GAMs with integrated model selection using penalized regression splines and applications to environmental modelling
10.1016/s0304-3800(02)00193-x · 2002 · External reference
Analyzing the time course of pupillometric data
10.1177/2331216519832483 · 2019 · External reference
10.1007/978-3-319-69830-4_4
10.1007/978-3-319-69830-4_4 · External reference
General additive models address statistical issues in diffusion MRI: an example with clinically anxious adolescents
10.1016/j.nicl.2022.102937 · 2022 · External reference
Unresolved reference
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An empirical survey of data augmentation for time series classification with neural networks
10.1371/journal.pone.0254841 · 2021 · External reference
An open resource for transdiagnostic research in pediatric mental health and learning disorders
10.1038/sdata.2017.181 · 2017 · External reference
An analysis-ready and quality controlled resource for pediatric brain white-matter research
10.1038/s41597-022-01695-7 · 2022 · External reference
Combining citizen science and deep learning to amplify expertise in neuroimaging
10.3389/fninf.2019.00029 · 2019 · External reference
Harmonization of multi-site diffusion tensor imaging data
10.1016/j.neuroimage.2017.08.047 · 2017 · External reference
Harmonization of cortical thickness measurements across scanners and sites
10.1016/j.neuroimage.2017.11.024 · 2018 · External reference
Adjusting batch effects in microarray expression data using empirical Bayes methods
10.1093/biostatistics/kxj037 · 2007 · External reference
Regression shrinkage and selection via the Lasso
10.1111/j.2517-6161.1996.tb02080.x · 1996 · External reference
10.1109/ijcnn.2017.7966039
10.1109/ijcnn.2017.7966039 · External reference
Dropout: a simple way to prevent neural networks from overfitting
2014 · External reference
Very deep convolutional networks for large-scale image recognition
External reference
Gradient-based learning applied to document recognition
10.1109/5.726791 · 1998 · External reference
Unresolved reference
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10.1109/cvpr.2016.90
10.1109/cvpr.2016.90 · External reference
Long short-term memory
10.1162/neco.1997.9.8.1735 · 1997 · External reference
Optimal hyperparameters for deep LSTM-networks for sequence labeling tasks
2017 · External reference
LSTM fully convolutional networks for time series classification
10.1109/access.2017.2779939 · 2018 · External reference
Adam: A method for stochastic optimization
External reference
SciPy 1.0: fundamental algorithms for scientific computing in Python
10.1038/s41592-019-0686-2 · 2020 · External reference
Unresolved reference
External reference
Probabilistic streamline q-ball tractography using the residual bootstrap
10.1016/j.neuroimage.2007.08.021 · 2008 · External reference
Estimation of fiber orientation probability density functions in high angular resolution diffusion imaging
10.1016/j.neuroimage.2009.04.049 · 2009 · External reference
Reconstruction of the orientation distribution function in single- and multiple-shell q-ball imaging within constant solid angle
10.1002/mrm.22365 · 2010 · External reference
PreQual: an automated pipeline for integrated preprocessing and quality assurance of diffusion weighted MRI images
10.1002/mrm.28678 · 2021 · External reference
TractoFlow: a robust, efficient and reproducible diffusion MRI pipeline leveraging Nextflow & Singularity
10.1016/j.neuroimage.2020.116889 · 2020 · External reference
Unresolved reference
External reference
(2014). Tidy Data
10.18637/jss.v059.i10 · 2014 · External reference
Temporal-callosal pathway diffusivity predicts phonological skills in children
10.1073/pnas.0608961104 · 2007 · External reference
Tract probability maps in stereotaxic spaces: analyses of white matter anatomy and tract-specific quantification
10.1016/j.neuroimage.2007.07.053 · 2008 · External reference
10.1007/978-3-031-47292-3_7
10.1007/978-3-031-47292-3_7 · External reference
White matter correlates of sensorimotor synchronization in persistent developmental stuttering
10.1016/j.jcomdis.2021.106169 · 2022 · External reference
Development of the visual white matter pathways mediates development of electrophysiological responses in visual cortex
10.1002/hbm.25654 · 2021 · External reference
White matter associations with spelling performance
10.1007/s00429-024-02775-7 · 2024 · External reference
Imaging structural and functional brain development in early childhood
10.1038/nrn.2018.1 · 2018 · External reference
Infant brain atlases from neonates to 1- and 2-year-olds
2011 · External reference
TractSeg - Fast and accurate white matter tract segmentation
10.1016/j.neuroimage.2018.07.070 · 2018 · External reference
The white matter query language: a novel approach for describing human white matter anatomy
10.1007/s00429-015-1179-4 · 2016 · External reference
Deep white matter analysis (DeepWMA): fast and consistent tractography segmentation
10.1016/j.media.2020.101761 · 2020 · External reference
RGVPSeg: multimodal information fusion network for retinogeniculate visual pathway segmentation
10.1007/s11517-024-03248-z · 2025 · External reference
10.1109/visual.1996.567752
10.1109/visual.1996.567752 · External reference
Unresolved reference
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Making data sharing work: the FCP/INDI experience
10.1016/j.neuroimage.2012.10.064 · 2013 · External reference
A community-developed open-source computational ecosystem for big neuro data
10.1038/s41592-018-0181-1 · 2018 · External reference
Generalized additive models
1986 · External reference
10.1007/978-3-030-01418-6_10
10.1007/978-3-030-01418-6_10 · External reference
10.25080/majora-342d178e-012
10.25080/majora-342d178e-012 · External reference
10.1007/10968987_3
10.1007/10968987_3 · External reference
Ray: a distributed framework for emerging AI applications
2017 · External reference
Unresolved reference
External reference
Brain connections derived from diffusion MRI tractography can be highly anatomically accurate-if we know where white matter pathways start, where they end, and where they do not go
10.1007/s00429-020-02129-z · 2020 · External reference
Tractometry of human visual white matter pathways in health and disease
10.2463/mrms.rev.2024-0007 · 2024 · External reference
Development of the alpha rhythm is linked to visual white matter pathways and visual detection performance
10.1523/jneurosci.0684-23.2023 · 2024 · External reference
Early segmental white matter fascicle microstructural damage predicts the corresponding cognitive domain impairment in cerebral small vessel disease patients by automated fiber quantification
10.3389/fnagi.2020.598242 · 2021 · External reference
Loss of integrity of corpus callosum white matter hyperintensity penumbra predicts cognitive decline in patients with subcortical vascular mild cognitive impairment
10.3389/fnagi.2021.605900 · 2021 · External reference
Alterations in the white matter fiber tracts of preschool-aged children with autism spectrum disorder: an automated fiber quantification study
10.21037/qims-24-950 · 2024 · External reference
Short fiber bundle filtering and test-retest reproducibility of the Superficial White Matter
10.3389/fnins.2024.1394681 · 2024 · External reference
White matter microstructure, traumatic brain injury, and disruptive behavior disorders in girls and boys
10.3389/fnins.2024.1391407 · 2024 · External reference
Mahalanobis distance tractometry (MaD-Tract) - a framework for personalized white matter anomaly detection applied to TBI
10.1016/j.neuroimage.2022.119475 · 2022 · External reference
Deciphering white matter microstructural alterations in catatonia according to ICD-11: replication and machine learning analysis
10.1038/s41380-024-02821-0 · 2025 · External reference
Longitudinal development of human brain wiring continues from childhood into adulthood
10.1523/jneurosci.5302-10.2011 · 2011 · External reference
Ageing and brain white matter structure in 3,513 UK Biobank participants
10.1038/ncomms13629 · 2016 · External reference
Optic radiations representing different eccentricities age differently
10.1002/hbm.26267 · 2023 · External reference
Tractometry of the Human Connectome Project: resources and insights
10.3389/fnins.2024.1389680 · 2024 · External reference
White matter and literacy: a dynamic system in flux
10.1016/j.dcn.2024.101341 · 2024 · External reference
Rapid and widespread white matter plasticity during an intensive reading intervention
10.1038/s41467-018-04627-5 · 2018 · External reference
Associative white matter tracts selectively predict sensorimotor learning
10.1038/s42003-024-06420-1 · 2024 · External reference
Detecting microstructural deviations in individuals with deep diffusion MRI tractometry
10.1038/s43588-021-00126-8 · 2021 · External reference
Longitudinal development of human brain wiring continues from childhood into adulthood
10.1523/jneurosci.5302-10.2011 · 2011 · External reference
A review of diffusion MRI of typical white matter development from early childhood to young adulthood
10.1002/nbm.3778 · 2019 · External reference
Integrating explanation and prediction in computational social science
10.1038/s41586-021-03659-0 · 2021 · External reference
To explain or to predict?
10.1214/10-sts330 · 2010 · External reference
Fiber Microstructure Quantile (FMQ) regression: A novel statistical approach for analyzing white matter bundles from periphery to core
2025 · External reference
Bundle analytics, a computational framework for investigating the shapes and profiles of brain pathways across populations
10.1038/s41598-020-74054-4 · 2020 · External reference
Phybers: a package for brain tractography analysis.
10.3389/fnins.2024.1333243 · 2024 · External reference
BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods
10.1371/journal.pcbi.1005209 · 2017 · External reference
A reproducible and generalizable software workflow for analysis of large-scale neuroimaging data collections using BIDS Apps
10.1162/imag_a_00074 · 2024 · External reference
An open resource for transdiagnostic research in pediatric mental health and learning disorders
10.1038/sdata.2017.181 · 2017 · External reference
The Cambridge Centre for Ageing and Neuroscience (Cam-CAN) data repository: Structural and functional MRI, MEG, and cognitive data from a cross-sectional adult lifespan sample
10.1016/j.neuroimage.2015.09.018 · 2017 · External reference
The Adolescent Brain Cognitive Development (ABCD) study: imaging acquisition across 21 sites
10.1016/j.dcn.2018.03.001 · 2018 · External reference
An introduction to the HEALthy Brain and Child Development Study (HBCD) study
10.1016/j.dcn.2024.101441 · 2024 · External reference
Accelerated Microstructure Imaging via Convex Optimization (AMICO) from diffusion MRI data
10.1016/j.neuroimage.2014.10.026 · 2015 · External reference
NODDI: practical in vivo neurite orientation dispersion and density imaging of the human brain
10.1016/j.neuroimage.2012.03.072 · 2012 · External reference
Array programming with NumPy
10.1038/s41586-020-2649-2 · 2020 · External reference
SciPy 1.0: fundamental algorithms for scientific computing in Python
10.1038/s41592-019-0686-2 · 2020 · External reference
10.25080/majora-4af1f417-001
10.25080/majora-4af1f417-001 · External reference
The past, present, and future of the brain imaging data structure (BIDS)
2024 · External reference
