From fb28c0e63184a2d85b3e71fdf9ca2800205aa010 Mon Sep 17 00:00:00 2001 From: Wendi Bacon <44605769+nomadscientist@users.noreply.github.com> Date: Mon, 7 Oct 2024 23:26:23 +0100 Subject: [PATCH 1/4] Minor updates to GO enrichment tutorial --- topics/single-cell/tutorials/GO-enrichment/tutorial.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/topics/single-cell/tutorials/GO-enrichment/tutorial.md b/topics/single-cell/tutorials/GO-enrichment/tutorial.md index 7fb0e6343736d9..53d440d85f972f 100644 --- a/topics/single-cell/tutorials/GO-enrichment/tutorial.md +++ b/topics/single-cell/tutorials/GO-enrichment/tutorial.md @@ -33,8 +33,8 @@ key_points: - GO enrichment analysis is used to discover new insights about how cells work, which can lead to better understanding of biological processes and diseases. contributors: -- nomadscientist - MennaGamal +- nomadscientist --- In the tutorial [Filter, plot and explore single-cell RNA-seq data with Scanpy]({% link topics/single-cell/tutorials/scrna-case_basic-pipeline/tutorial.md %}), we took an important step in our single-cell RNA sequencing analysis by identifying marker genes for each of the clusters in our dataset. These marker genes are crucial, as they help us distinguish between different cell types and states, giving us a clearer picture of the cellular diversity within our samples. From 14c42ba7ba7352046cbb4edc5a9220ad658083aa Mon Sep 17 00:00:00 2001 From: Wendi Bacon <44605769+nomadscientist@users.noreply.github.com> Date: Mon, 7 Oct 2024 23:28:41 +0100 Subject: [PATCH 2/4] add exploratory subtopic --- topics/single-cell/metadata.yaml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/topics/single-cell/metadata.yaml b/topics/single-cell/metadata.yaml index 74be3ee8843e13..2ea6a2f1e980f0 100644 --- a/topics/single-cell/metadata.yaml +++ b/topics/single-cell/metadata.yaml @@ -51,7 +51,9 @@ subtopics: - id: datamanipulation title: "Changing data formats & preparing objects" description: "These tutorials cover a range of needs for importing data from different sources, to changing data into different formats to move from one analysis to the other." - + - id: exploratory + title: "Exploratory Analyses" + description: "What do you do with your list of genes? Come here to explore your results more!" references: From 9f8f0a43b8fe4b25ace53f248b4c6d20d8268472 Mon Sep 17 00:00:00 2001 From: Wendi Bacon <44605769+nomadscientist@users.noreply.github.com> Date: Mon, 7 Oct 2024 23:29:37 +0100 Subject: [PATCH 3/4] Add subtopic --- topics/single-cell/tutorials/GO-enrichment/tutorial.md | 1 + 1 file changed, 1 insertion(+) diff --git a/topics/single-cell/tutorials/GO-enrichment/tutorial.md b/topics/single-cell/tutorials/GO-enrichment/tutorial.md index 53d440d85f972f..9028192ee64f51 100644 --- a/topics/single-cell/tutorials/GO-enrichment/tutorial.md +++ b/topics/single-cell/tutorials/GO-enrichment/tutorial.md @@ -3,6 +3,7 @@ layout: tutorial_hands_on title: GO Enrichment Analysis on Single-Cell RNA-Seq Data zenodo_link: 'https://zenodo.org/records/13461890' +subtopic: exploratory questions: - What is Gene Ontology (GO) enrichment analysis, and why should I perform it on my marker genes? From b171b1cfc0b09ec89beede5a9d012d67222f8da4 Mon Sep 17 00:00:00 2001 From: Wendi Bacon <44605769+nomadscientist@users.noreply.github.com> Date: Fri, 11 Oct 2024 11:46:23 +0100 Subject: [PATCH 4/4] Change intro section --- topics/single-cell/metadata.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/topics/single-cell/metadata.yaml b/topics/single-cell/metadata.yaml index 2ea6a2f1e980f0..56d84d08957db2 100644 --- a/topics/single-cell/metadata.yaml +++ b/topics/single-cell/metadata.yaml @@ -26,7 +26,7 @@ editorial_board: subtopics: - id: scintroduction title: "Introduction" - description: "Start here if you are new to single cell analysis in Galaxy and want to learn the concepts." + description: "Start here if you are new to single cell analysis and want to learn the concepts." - id: firstsc title: "Your first analysis" description: "Start here if you are new to single cell analysis in Galaxy and want to try analysing data."