From 88403245df4701e81509960f837c0103824f4975 Mon Sep 17 00:00:00 2001 From: Gil Poiares-Oliveira Date: Mon, 2 Dec 2024 17:26:53 +0000 Subject: [PATCH 1/4] Add eLabFTW and ELN-finder --- _data/tool_and_resource_list.yml | 9 +++++++++ pages/your_tasks/metadata_management.md | 7 ++++--- 2 files changed, 13 insertions(+), 3 deletions(-) diff --git a/_data/tool_and_resource_list.yml b/_data/tool_and_resource_list.yml index 33a88a089..bfacd7b43 100755 --- a/_data/tool_and_resource_list.yml +++ b/_data/tool_and_resource_list.yml @@ -2745,3 +2745,12 @@ registry: fairsharing: 4c0b6b url: http://uberon.org/ +- description: A free and open source electronic lab notebook. + id: elabftw + name: eLabFTW + url: https://www.elabftw.net/ + tess: elabftw +- description: A tool to aid in chosing the most suitable Electronic Lab Notebook (ELN) for a specific purpose. + id: eln-finder + name: ELN Finder + url: https://eln-finder.ulb.tu-darmstadt.de/home diff --git a/pages/your_tasks/metadata_management.md b/pages/your_tasks/metadata_management.md index 5e6cddcfa..6e26ef29c 100644 --- a/pages/your_tasks/metadata_management.md +++ b/pages/your_tasks/metadata_management.md @@ -1,6 +1,6 @@ --- title: Documentation and metadata -contributors: [Flora D'Anna, Marco Carraro, Yvonne Kallberg, Markus Englund, Marco Roos, Korbinian Bösl, Rob Hooft, Elin Kronander, Marina Popleteeva] +contributors: [Flora D'Anna, Marco Carraro, Yvonne Kallberg, Markus Englund, Marco Roos, Korbinian Bösl, Rob Hooft, Elin Kronander, Marina Popleteeva, Gil Poiares-Oliveira] description: How to document and describe your data. page_id: metadata related_pages: @@ -51,7 +51,7 @@ Due to the large variety of experiments, techniques and collaborative studies th ### Solutions * There are many appropriate tools for data documentation during the project. Check with your institute to know what is offered. - * Electronic Lab Notebooks (ELNs) are usually better for more disparate and unstructured information that requires flexibility. Researchers can use ELN in a personalized way and adapt it to document their every-day work. + * Electronic Lab Notebooks (ELNs), are usually better for more disparate and unstructured information that requires flexibility. Researchers can use an ELN (such as {% tool "elabftw" %}) in a personalized way and adapt it to document their every-day work. * Laboratory Information Management Systems (LIMS) typically follow pre-defined and highly structured experimental workflow. LIMS are used to document and track biological samples through the experimental processes and can support direct import of data from sources such as instruments. @@ -59,10 +59,11 @@ Due to the large variety of experiments, techniques and collaborative studies th * Online platforms for collaborative research and file sharing services, which integrate with several data management tools, could also be used for data documentation during the project. For instance, {% tool "openscienceframework" %} has integrations with Mendeley, {% tool "dropbox" %}, {% tool "github" %}, {% tool "figshare" %}, etc. - * There is a major area of overlap between the aforementioned tools for data documentation, so it is better to choose the tool(s) that best address your specific need. Some tools can be used at the same time to address different needs and they can be complementary. Comparative lists can help with the choice: + * There is a major area of overlap between the aforementioned tools for data documentation, so it is better to choose the tool(s) that best address your specific need. Some tools can be used at the same time to address different needs and they can be complementary. Comparative lists and tools can help with the choice: * {% tool "harvard-medical-school-electronic-lab-notebooks" %} * {% tool "university-of-cambridge-electronic-research-notebook-products" %} * {% tool "publisso" %} - Documenting research data: Electronic Lab(oratory) Notebooks + * {% tool "eln-finder" %} * Independently of the tools, you should agree on and establish a [data organisation](data_organisation) system for files (or tables in a database) together with your team or [Data Management Working Group](data_quality#how-do-you-ensure-the-quality-of-research-data): * Folder structure From e5989d0dfceff696a6a479bcc0444a4d923164f4 Mon Sep 17 00:00:00 2001 From: Federico Bianchini <72258479+bianchini88@users.noreply.github.com> Date: Mon, 2 Dec 2024 19:32:36 +0100 Subject: [PATCH 2/4] Update tool_and_resource_list.yml syntax fix for TeSS query on the resource. (ref. https://rdmkit.elixir-europe.org/tool_resource_update#the-main-yaml-file) --- _data/tool_and_resource_list.yml | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/_data/tool_and_resource_list.yml b/_data/tool_and_resource_list.yml index bfacd7b43..51324edb8 100755 --- a/_data/tool_and_resource_list.yml +++ b/_data/tool_and_resource_list.yml @@ -2749,7 +2749,8 @@ id: elabftw name: eLabFTW url: https://www.elabftw.net/ - tess: elabftw + registry: + tess: elabftw - description: A tool to aid in chosing the most suitable Electronic Lab Notebook (ELN) for a specific purpose. id: eln-finder name: ELN Finder From ec98402b685ff318bb13603c4177fc0ddba5665f Mon Sep 17 00:00:00 2001 From: Gil Poiares-Oliveira Date: Wed, 4 Dec 2024 15:46:33 +0100 Subject: [PATCH 3/4] Grammar fixes Co-authored-by: Federico Bianchini <72258479+bianchini88@users.noreply.github.com> --- pages/your_tasks/metadata_management.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pages/your_tasks/metadata_management.md b/pages/your_tasks/metadata_management.md index 6e26ef29c..e49ce1a4d 100644 --- a/pages/your_tasks/metadata_management.md +++ b/pages/your_tasks/metadata_management.md @@ -51,7 +51,7 @@ Due to the large variety of experiments, techniques and collaborative studies th ### Solutions * There are many appropriate tools for data documentation during the project. Check with your institute to know what is offered. - * Electronic Lab Notebooks (ELNs), are usually better for more disparate and unstructured information that requires flexibility. Researchers can use an ELN (such as {% tool "elabftw" %}) in a personalized way and adapt it to document their every-day work. + * Electronic Lab Notebooks (ELNs) are usually better for more disparate and unstructured information that requires flexibility. Researchers can use an ELN (such as {% tool "elabftw" %}) in a personalised way and adapt it to document their everyday work. * Laboratory Information Management Systems (LIMS) typically follow pre-defined and highly structured experimental workflow. LIMS are used to document and track biological samples through the experimental processes and can support direct import of data from sources such as instruments. From 66c7066702a42692862cad85f355f956da84e44f Mon Sep 17 00:00:00 2001 From: Gil Poiares-Oliveira Date: Thu, 5 Dec 2024 15:23:06 +0100 Subject: [PATCH 4/4] Fix typo the in ELN Finder's description --- _data/tool_and_resource_list.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/_data/tool_and_resource_list.yml b/_data/tool_and_resource_list.yml index 51324edb8..0d380f984 100755 --- a/_data/tool_and_resource_list.yml +++ b/_data/tool_and_resource_list.yml @@ -2751,7 +2751,7 @@ url: https://www.elabftw.net/ registry: tess: elabftw -- description: A tool to aid in chosing the most suitable Electronic Lab Notebook (ELN) for a specific purpose. +- description: A tool to aid in choosing the most suitable Electronic Lab Notebook (ELN) for a specific purpose. id: eln-finder name: ELN Finder url: https://eln-finder.ulb.tu-darmstadt.de/home