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add suggestions from @mashehu
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mirpedrol committed Aug 23, 2024
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**Highlights**

- Pipeline commands are renamed from `nf-core <comand>` to `nf-core pipelines <command>` to match the structure of modules and subworkflows commands.
- More customisation for pipeline templates. The template has been divided into features which can be skipped, making it easier to avoid annoying merge conflicts, for example, for pipeline which don't have a FastQC module.
- A new Text User Interface app when running nf-core pipelines create
- The pipeline template will come with the `nf-schema` plugin
- Pipeline linting will run with the used version of the template to minimise errors in opened PRs with every new tools release.
- New command `nf-core pipelines rocrate` to create a [Research Object (RO) crate](https://www.researchobject.org/ro-crate/about_ro_crate) for a pipeline
- Pipeline commands are renamed from `nf-core <comand>` to `nf-core pipelines <command>` to follow the same command structure as modules and subworkflows commands.
- More customisation for pipeline templates. The template has been divided into features which can be skipped, e.g. you can create a new pipeline without any traces of FastQC in it.
- A new Text User Interface app when running `nf-core pipelines create` to help us guide you through the process better (no worries, you can still use the cli if you give all values as parameters)
- We replaced nf-validation with nf-schema in the pipeline template
- CI tests now lint with the nf-core tools version matching the template version of the pipeline, to minimise errors in opened PRs with every new tools release.
- New command `nf-core pipelines ro-crate` to create a [Research Object (RO) crate](https://www.researchobject.org/ro-crate/) for a pipeline
- `nf-core licences` command is deprecated.
- The structure of nf-core/tools pytests has been updated
- The structure of the API docs has been updated
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