Merge pull request #1903 from lldelisle/atac_library

topics/epigenetics/tutorials/atac-seq/data-library.yaml

@@ -0,0 +1,29 @@
+---
+destination:
+  type: library
+  name: GTN - Material
+  description: Galaxy Training Network Material
+  synopsis: Galaxy Training Network Material. See https://training.galaxyproject.org
+items:
+- name: Epigenetics
+  description: DNA methylation is an epigenetic mechanism used by higher eukaryotes
+    and involved in e.g. gene expression, X-Chromosome inactivating, imprinting, and
+    gene silencing of germline specific gene and repetitive elements.
+  items:
+  - name: ATAC-Seq data analysis
+    items:
+    - name: 'DOI: 10.5281/zenodo.3862793'
+      description: latest
+      items:
+      - url: https://zenodo.org/api/files/b205aa3d-919b-4fbb-a8dd-3ae01d5daa91/ENCFF933NTR.bed.gz
+        src: url
+        ext: gz
+        info: https://zenodo.org/record/3862793
+      - url: https://zenodo.org/api/files/b205aa3d-919b-4fbb-a8dd-3ae01d5daa91/SRR891268_chr22_enriched_R1.fastq.gz
+        src: url
+        ext: gz
+        info: https://zenodo.org/record/3862793
+      - url: https://zenodo.org/api/files/b205aa3d-919b-4fbb-a8dd-3ae01d5daa91/SRR891268_chr22_enriched_R2.fastq.gz
+        src: url
+        ext: gz
+        info: https://zenodo.org/record/3862793

topics/epigenetics/tutorials/atac-seq/tutorial.md

@@ -2,7 +2,7 @@
 layout: tutorial_hands_on
 
 title: ATAC-Seq data analysis
-zenodo_link: "https://zenodo.org/record/3270536"
+zenodo_link: https://zenodo.org/record/3862793
 questions:
 - Which DNA regions are accessible in the human lymphoblastoid cell line GM12878?
 - How to analyse and visualise ATAC-Seq data?
@@ -62,12 +62,12 @@ We first need to download the sequenced reads (FASTQs) as well as other annotati
 >
 >    {% include snippets/create_new_history.md %}
 >
-> 2. Import the files from [Zenodo](https://zenodo.org/record/3270536) and [ENCODE](https://www.encodeproject.org/) or from the shared data library
+> 2. Import the files from [Zenodo](https://doi.org/10.5281/zenodo.3862792) or from the shared data library
 >
 >    ```
->    https://zenodo.org/record/3270536/files/SRR891268_R1.fastq.gz
->    https://zenodo.org/record/3270536/files/SRR891268_R2.fastq.gz
->    https://www.encodeproject.org/files/ENCFF933NTR/@@download/ENCFF933NTR.bed.gz
+>    https://zenodo.org/record/3862793/files/ENCFF933NTR.bed.gz
+>    https://zenodo.org/record/3862793/files/SRR891268_chr22_enriched_R1.fastq.gz
+>    https://zenodo.org/record/3862793/files/SRR891268_chr22_enriched_R2.fastq.gz
 >    ```
 >
 >    {% include snippets/import_via_link.md %}