[HTML][HTML] Open and reproducible neuroimaging: From study inception to publication
Empirical observations of how labs conduct research indicate that the adoption rate of open
practices for transparent, reproducible, and collaborative science remains in its infancy. This …
practices for transparent, reproducible, and collaborative science remains in its infancy. This …
Towards a biologically annotated brain connectome
The brain is a network of interleaved neural circuits. In modern connectomics, brain
connectivity is typically encoded as a network of nodes and edges, abstracting away the rich …
connectivity is typically encoded as a network of nodes and edges, abstracting away the rich …
[PDF][PDF] DataLad: distributed system for joint management of code, data, and their relationship
Y Halchenko, K Meyer, B Poldrack, D Solanky… - Journal of Open Source …, 2021 - par.nsf.gov
Summary Data Lad is a Python-based tool for the joint management of code, data, and their
relationship, built on top of a versatile system for data logistics (git-annex) and the most …
relationship, built on top of a versatile system for data logistics (git-annex) and the most …
ASLPrep: a platform for processing of arterial spin labeled MRI and quantification of regional brain perfusion
Arterial spin labeled (ASL) magnetic resonance imaging (MRI) is the primary method for
noninvasively measuring regional brain perfusion in humans. We introduce ASLPrep, a …
noninvasively measuring regional brain perfusion in humans. We introduce ASLPrep, a …
Time-dependent memory transformation in hippocampus and neocortex is semantic in nature
Memories undergo a time-dependent neural reorganization, which is assumed to be
accompanied by a transformation from detailed to more gist-like memory. However, the …
accompanied by a transformation from detailed to more gist-like memory. However, the …
The BigBrainWarp toolbox for integration of BigBrain 3D histology with multimodal neuroimaging
Neuroimaging stands to benefit from emerging ultrahigh-resolution 3D histological atlases of
the human brain; the first of which is 'BigBrain'. Here, we review recent methodological …
the human brain; the first of which is 'BigBrain'. Here, we review recent methodological …
Moving beyond processing and analysis-related variation in neuroscience
When fields lack consensus standards and ground truths for their analytic methods,
reproducibility can be more of an ideal than a reality. Such has been the case for functional …
reproducibility can be more of an ideal than a reality. Such has been the case for functional …
ENIGMA HALFpipe: interactive, reproducible, and efficient analysis for resting‐state and task‐based fMRI data
The reproducibility crisis in neuroimaging has led to an increased demand for standardized
data processing workflows. Within the ENIGMA consortium, we developed HALFpipe (H …
data processing workflows. Within the ENIGMA consortium, we developed HALFpipe (H …
The integrity of dopaminergic and noradrenergic brain regions is associated with different aspects of late-life memory performance
MJ Dahl, SL Bachman, S Dutt, S Düzel, NC Bodammer… - Nature Aging, 2023 - nature.com
Abstract Changes in dopaminergic neuromodulation play a key role in adult memory
decline. Recent research has also implicated noradrenaline in shaping late-life memory …
decline. Recent research has also implicated noradrenaline in shaping late-life memory …
Quality control in functional MRI studies with MRIQC and fMRIPrep
The implementation of adequate quality assessment (QA) and quality control (QC) protocols
within the magnetic resonance imaging (MRI) research workflow is resource-and time …
within the magnetic resonance imaging (MRI) research workflow is resource-and time …