Publications

Below you’ll find a (somewhat recent) list of publications. However, for an up-to-date list including things I might have missed, please check my Google Scholar profile.

* - denotes shared first and/or corresponding author

Open and reproducible neuroimaging: from study inception to publication

G Niso, R Botvinik-Nezer, S Appelhoff, A De La Vega, O Esteban, ..., P Herholz, ..., Jochem W Rieger
NeuroImage - 2022
preprint, GitHub repository, Jupyter Book

Neuroscout, a unified platform for generalizable and reproducible fMRI research

A de la Vega, R Rocca, R W Blair, C J Markiewicz, J Mentch, J D Kent, P Herholz, S S Ghosh, R A Poldrack, T Yarkoni
eLife - 2022
preprint, documentation/platform, GitHub repository, Jupyter Book

Micapipe: A Pipeline for Multimodal Neuroimaging and Connectome Analysis

R R Cruces, J Royer, P Herholz, S Larivière, R Vos de Wael, C Paquola, O Benkarim, BY Park, J Degré-Pelletier, M Nelson, J DeKraker, C Tardif, JB Poline, L Concha, B C Bernhardt
NeuroImage - 2022
preprint, documentation, GitHub repository

BrainStat: A toolbox for brain-wide statistics and neuroscientific contextualization

R Vos de Wael, Ş Bayrak, O Benkarim, P Herholz, S Lariviere, R Rodriguez-Cruces, C Paquola, SJ Hong, B Misic, A Evans, S Valk, B Bernhardt preprint at biorxiv - 2022
documentation, GitHub repository

A roadmap to reverse engineering real-world generalization by combining naturalistic paradigms, deep sampling, and predictive computational models

P Herholz, E Fortier, M Toneva, N Farrugia, L Wehbe, V Borghesani preprint at arxiv - 2021

An open MRI dataset for multiscale neuroscience

J Royer, R Rodríguez-Cruces, S Tavakol, S Lariviere, P Herholz, Q Li, R Vos de Wael, C Paquola, O Benkarim, BY Park, A J Lowe, D S Margulies, J Smallwood, A Bernasconi, N Bernasconi, B Frauscher, B C Bernhardt
Scientific Data - 2021
data repository, preprint

Centering inclusivity in the design of online conferences

E Levitis, CG van Praag, R Gau, S Heunis, E DuPre…, P Herholz,…C Maumet
GigaScience - 2021
preprint

Brainhack: developing a culture of open, inclusive, community-driven neuroscience

R Gau, S Noble, K Heuer, K Bottenhorn, IP Bilgin…, P. Herholz,…The Brainhack Community
Neuron - 2021
preprint, Jupyter Book

fMRIflows: a consortium of fully automatic univariate and multivariate fMRI processing pipelines

MP Notter, P Herholz*, S Da Costa, OF Gulban, AI Isik, MM Murray
Preprint at bioRxiv - 2021
preprint, Github repository

E Bannier, G Barker, V Borghesani, N Broeckx…, P. Herholz*,…H Zhu
Human Brain Mapping - 2021
docs, preprint

BIDSonym-a BIDSapp for the pseudo-anonymization of neuroimaging datasets

P. Herholz, RM Ludwig & JB Poline
Journal of Open Source Software - 2021
preprint, Github repository, docs

Variability in the analysis of a single neuroimaging dataset by many teams

R Botvinik-Nezer, F Holzmeister, CF Camerer, A Dreber, J Huber…, P. Herholz,… RA Poldrack & T Schonberg
Nature - 2020
Github repository, Github repository of my analysis team, preprint

JD Kent & P. Herholz Journal of Open Source Software - 2020
Github repository, docs

LAB–QA2GO: A free, easy-to-use toolbox for the quality assessment of magnetic resonance imaging data

C Vogelbacher, MHA Bopp, V Schuster, P. Herholz, Andreas Jansen & Jens Sommer
Frontiers in neuroscience - 2019
Github repository, preprint

AtlasReader: A Python package to generate coordinate tables, region labels, and informative figures from statistical MRI images

MP Notter, D Gale, P Herholz, R Markello, ML Notter-Bielser, K Whitaker
Journal of Open Source Software - 2019
Github repository

Comparison of fMRI paradigms assessing visuospatial processing: Robustness and reproducibility

V Schuster, P Herholz, KM Zimmermann, S Westermann, S Frässle & A Jansen
PloS one - 2017