Towards computational reproducibility when working with very large datasets

This archive contains the slides for a talk entitled 'Towards computational reproducibility when working with very large datasets', part of the special session ' 10 years of reproducibility in biomedical research: How can we achieve generalizability and fairness?' at the ISBI 2023

Open research software infrastructure in Neuro-Medicine

<p>A virtual talk given at the ZI Mannheim Open Science Symposium on open source software tools in the INM-7 of the research center Jülich, and plans for a recent collaborative project combing them.</p><p> </p><p>Abstract:</p><p>The Institute of Neuroscience and Medicine: Brain and Behavior (INM-7) at the research center Jülich combines clinical science with open source software development and open science. This talk will highlight central open source software projects of our institute, and their application in larger projects. As one of its developers, I will introduce the data management software DataLad (<a href="http://www.datalad.org">www.datalad.org</a>) and some of its applications - from data management in consortia to reproducible and privacy-aware data analysis at scale. In addition, I will outline a recently established collaborative platform for digital medicine in North Rhine Westphalia, the ABCD-JU project. Building on our institute's open source projects for data management, mobile health applications and machine-learning (<a href="https://juaml.github.io/julearn/main/index.html">juaml.github.io/julearn</a>), it aims to establish an integrated, user-friendly, and FAIR infrastructure for digital biomarker collection, storage, and exchange for clinical scientists.</p><p>Beyond an overview of our tools and projects, this talk aims to spark discussions around synergies and interoperability with projects at the ZI.</p&gt

RDM for neuroimagers

A 20-minute talk on research data management for neuroimagers, presented virtually at the Oxford WIN Center on January 18th 2023. Sources can be found at https://github.com/datalad-handbook/datalad-course . A live rendering of the slides can be found at https://files.inm7.de/adina/talks/html/rdm_win_2023.html

imaginette

A smaller-sized version of the imagenette dataset for faster download for tutorial data. Taken from https://github.com/fastai/imagenette, which is shared under an Apache License. This copy exists to provide an even faster and smaller download for a tutorial at handbook.datalad.or

My first datalad osf project

This component was built from a DataLad dataset using the datalad-osf extension (https://github.com/datalad/datalad-osf). With this extension installed, this component can be git or datalad cloned from a 'osf://ID' URL, where 'ID' is the OSF node ID that shown in the OSF HTTP URL, e.g. https://osf.io/q8xnk can be cloned from osf://q8xnk. This particular project can be cloned using 'datalad clone osf://xajge

Forschungsdatenmanagement in den systemischen Neurowissenschaften: Herausforderungen und Praxislösungen

Lightning talk on RDM challenges in systems neuroscience at the research data management day 2023 at the HHU Düsseldorf. https://www.fdm.hhu.de/veranstaltungen/tag-der-forschungsdaten-in-nrw-202

my-osf-project-title

This component was built from a DataLad dataset using the datalad-osf extension (https://github.com/datalad/datalad-osf). With this extension installed, this component can be git or datalad cloned from a 'osf://ID' URL, where 'ID' is the OSF node ID that shown in the OSF HTTP URL, e.g. https://osf.io/q8xnk can be cloned from osf://q8xnk. This particular project can be cloned using 'datalad clone osf://q74fs

Data and reproducibility management with DataLad

Slides for a two-hour workshop 'Data and reproducibility management with DataLad', part of the 'Love your Data? Make it reproducible?' Helmholtz Community Workshop in the International Love Data Week on February 14th, 2023. www.helmholtz-hida.de/en/events/love-your-data-make-it-reproducible/ The slide sources can be found at github.com/datalad-handbook/datalad-course , and a rendering of the slides is at files.inm7.de/adina/talks/html/love-your-data-2023

Manage your data with DataLad: From local version control to data publication

Workshop slides for a 2-hour DataLad workshop in Frankfurt at the CuttingGardens conference 2023. https://cuttinggardens2023.org/gardens/frankfurt/#LT_AW Workshop abstract: Manage your Data with DataLad: From local version control to data publication Many open source software tools assist with the complex task of data management. This workshop introduces one of them, the data management and data publication tool DataLad (https://www.datalad.org). If you have always wanted to get going with version control, are curious to find out how to use DataLad, or want to see simple workflows for data management routines, this workshop is for you. You will learn about core concepts of research data management and how to implement them – from local version control for all parts of your research to data publication. With a focus on technical and conceptual aspects alike, the workshop aims to equip you with skills you could transfer to real-world data, with a mix of theoretical input and interactive hands-on applications.   The workshop will provide a cloud-computing environment for interactive participation, but participants should bring their own computers in order to access it

Data and Reproducibility Management with DataLad

Slides for a two-hour workshop 'Data and reproducibility management with DataLad', part of the 'Helmholtz Reproducibility' Workshop in the International at the GFZ Potsdam, November 16th 2023. https://events.hifis.net/event/998 The slide sources can be found at github.com/datalad-handbook/datalad-course, and a rendering of the slides is at files.inm7.de/adina/talks/html/helmholtz-reproducibility