diff --git a/content/resources/getting-started/_index.md b/content/resources/getting-started/_index.md index 8aaf004..0255037 100644 --- a/content/resources/getting-started/_index.md +++ b/content/resources/getting-started/_index.md @@ -8,14 +8,14 @@ weight: 2 ReproNim offers best practices, tools and training to implement reproducible neuroimaging in your lab. Here is a brief overview of our website: * **New to reproducible neuroimaging?** - * [Why reproducible neuroimaging](https://repronim.netlify.app/about/why/) + * [Why reproducible neuroimaging](/about/why/) * [What is reproducible neuroimaging?](/about/why/#what-is-reproducible-neuroimaging) * [ReproNim's principles and supporting actions](/about/in-practice/) for reproducible neuroimaging * **Wondering what ReproNim can do for you?** * Meet our [exemplary user personas and the issues they face in running neuroimaging studies](/resources/getting-started/#meet-our-user-personas) * View our introduction to the [ReproNim approach](/about/repronim-approach/) and some step-by-step tutorials on how to use ReproNim tools to improve your ability to perform robust and shareable neuroimaging studies * **Tools and how-to guide:** - * Our [Resource](https://repronim.netlify.app/resources/) section provides a listing of [tools](/resources/tools/) and [tutorials](/resources/tutorials/) on how to use them to support principles of reproducible neuroimaging + * Our [Resource](/resources/) section provides a listing of [tools](/resources/tools/) and [tutorials](/resources/tutorials/) on how to use them to support principles of reproducible neuroimaging * **Training:** * [On-line training course](https://www.repronim.org/teach.html) on a range of basic and more advanced topics related to reproducible neuroimaging * [ReproNim Fellows Program](/fellowship/): Become a ReproNim fellow through our train the trainer program @@ -153,13 +153,13 @@ ReproNim is not an end to end platform, but has several tools that can take her **Use cases that might be of interest to Evelyn:** -* Planning and data management: Learn how a data collection and annotation framework for behavioral data to be collected can be set up using [ReproSchema and shared across multiple sites](https://repronim.netlify.app/resources/tutorials/reproschema/). +* Planning and data management: Learn how a data collection and annotation framework for behavioral data to be collected can be set up using [ReproSchema and shared across multiple sites](/resources/tutorials/reproschema/). * Principles: planning, data management * Actions: standards, annotations * Basic software management for distributed data: [Curating and processing a single study to generate standardized, analysis-ready data to participate in distributed projects using Nipoppy](/resources/tutorials/nipoppy/) * Principles: Software management * Standards: Standards, annotation -* Advanced data management: [Adding standards and semantics to data dictionaries to promote data harmonization and findability](https://repronim.netlify.app/resources/tutorials/data-dictionary/) +* Advanced data management: [Adding standards and semantics to data dictionaries to promote data harmonization and findability](/resources/tutorials/data-dictionary/) * Principles: data management, FAIR * Actions: Standards, Annotation * Advanced metadata management: [Searching and sharing metadata through ReproPond and ReproLake](/resources/tutorials/pond-lake/) diff --git a/content/resources/tools/neurobagel/_index.md b/content/resources/tools/neurobagel/_index.md index ee044eb..e5a32fe 100644 --- a/content/resources/tools/neurobagel/_index.md +++ b/content/resources/tools/neurobagel/_index.md @@ -36,7 +36,7 @@ Neurobagel is a front end to ReproNim infrastructure technologies. Neurobagel i - https://neurobagel.org/user_guide/query_tool/ - https://neurobagel.org/user_guide/getting_started/ - https://neurobagel.org/user_guide/data_prep/ - - [Searching across study metadata using ReproPonds, ReproLake and Neurobagel](https://repronim.netlify.app/resources/tutorials/pond-lake/) + - [Searching across study metadata using ReproPonds, ReproLake and Neurobagel](/resources/tutorials/pond-lake/) - Full documentation: https://neurobagel.org/user_guide/ - How to get help: https://neurostars.org/tag/neurobagel - Testimonials: https://www.linkedin.com/posts/evavanheese789_you-only-realise-how-important-infrastructure-activity-7220000830463053828-QdDy diff --git a/content/resources/tools/pynidm/_index.md b/content/resources/tools/pynidm/_index.md index 6d798af..5b9dd9a 100644 --- a/content/resources/tools/pynidm/_index.md +++ b/content/resources/tools/pynidm/_index.md @@ -41,7 +41,7 @@ PyNIDM is the first tool to allow working with NIDM without needing to understan ## Links - Home page: https://pynidm.readthedocs.io/ -- Tutorial: [Creating a BIDS data dictionary and adding semantics for FAIR](https://repronim.netlify.app/resources/tutorials/data-dictionary/) +- Tutorial: [Creating a BIDS data dictionary and adding semantics for FAIR](/resources/tutorials/data-dictionary/) - Installation: https://pynidm.readthedocs.io/en/latest/#installation - Full documentation: https://pynidm.readthedocs.io/ - How to get help: https://github.com/incf-nidash/PyNIDM/issues diff --git a/content/resources/tutorials/_index.md b/content/resources/tutorials/_index.md index dc9a3b3..966822e 100644 --- a/content/resources/tutorials/_index.md +++ b/content/resources/tutorials/_index.md @@ -13,7 +13,7 @@ Tutorials are organized into basic and more advanced approaches. Each tutorial i **Principle 1: Study Planning** * Creating a [neuroimaging data management and sharing plan](/resources/tutorials/data-management-and-sharing/) -* Set up a data collection and annotation framework for a multisite study using [ReproSchema](https://repronim.netlify.app/resources/tutorials/reproschema/). +* Set up a data collection and annotation framework for a multisite study using [ReproSchema](/resources/tutorials/reproschema/). **Principle 2: Data and metadata management**