Merge branch 'master' of renkulab.io:stadler.michael/adv_scrnaseq_2020

.gitattributes

@@ -5,3 +5,21 @@ data/spermatogenesis_subset/AdultMouseRep3sub1M_S1_L001_R2_001.fastq.gz filter=l
 data/spermatogenesis_subset/AdultMouseRep3sub1M_S1_L001_R1_001.fastq.gz filter=lfs diff=lfs merge=lfs -text
 data/spermatogenesis_rnavelocity/AdultMouseRep3_alevin_GRCm38.gencode.vM21.spliced.intron.fl90.gentrome.k31_sce_nometa.rds filter=lfs diff=lfs merge=lfs -text
 data/spermatogenesis_rnavelocity/AdultMouseRep3_alevin_GRCm38.gencode.vM21.spliced.intron.fl90.gentrome.k31_sce_nometa.h5ad filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A1/spatial/tissue_positions_list.csv filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/curated/bc_A1.h5ad.gz filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A1/spatial/aligned_fiducials.jpg filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A2/V1_Breast_Cancer_Block_A_Section_2_filtered_feature_bc_matrix.h5 filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/curated/bc_A2.h5ad.gz filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A2/spatial/tissue_positions_list.csv filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A1/spatial/tissue_lowres_image.png filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A1/V1_Breast_Cancer_Block_A_Section_1_filtered_feature_bc_matrix.h5 filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/curated/bc-A2.h5ad.gz filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A2/spatial/scalefactors_json.json filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A2/spatial/aligned_fiducials.jpg filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A1/spatial/tissue_hires_image.png filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A2/spatial/tissue_lowres_image.png filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A1/spatial/detected_tissue_image.jpg filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A1/spatial/scalefactors_json.json filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A2/spatial/detected_tissue_image.jpg filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/raw/A2/spatial/tissue_hires_image.png filter=lfs diff=lfs merge=lfs -text
+data/spatial-transcriptomics/bc/curated/bc-A1.h5ad.gz filter=lfs diff=lfs merge=lfs -text

.renku/datasets/76e162dd-2c00-42e3-a7b0-ca4d1687cdea/metadata.yml

+'@context':
+  '@version': 1.1
+  _id: '@id'
+  _project:
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+      '@version': 1.1
+      _id: '@id'
+      created: schema:dateCreated
+      creator:
+        '@context':
+          '@version': 1.1
+          _id: '@id'
+          affiliation: schema:affiliation
+          alternate_name: schema:alternateName
+          email: schema:email
+          label: rdfs:label
+          name: schema:name
+          prov: http://www.w3.org/ns/prov#
+          rdfs: http://www.w3.org/2000/01/rdf-schema#
+          schema: http://schema.org/
+        '@id': schema:creator
+      name: schema:name
+      prov: http://www.w3.org/ns/prov#
+      schema: http://schema.org/
+      updated: schema:dateUpdated
+      version: schema:schemaVersion
+    '@id': schema:isPartOf
+  created: schema:dateCreated
+  creator:
+    '@context':
+      '@version': 1.1
+      _id: '@id'
+      affiliation: schema:affiliation
+      alternate_name: schema:alternateName
+      email: schema:email
+      label: rdfs:label
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+      prov: http://www.w3.org/ns/prov#
+      rdfs: http://www.w3.org/2000/01/rdf-schema#
+      schema: http://schema.org/
+    '@id': schema:creator
+  date_published: schema:datePublished
+  description: schema:description
+  files:
+    '@context':
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+      _id: '@id'
+      _project:
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+          _id: '@id'
+          created: schema:dateCreated
+          creator:
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+              '@version': 1.1
+              _id: '@id'
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+              alternate_name: schema:alternateName
+              email: schema:email
+              label: rdfs:label
+              name: schema:name
+              prov: http://www.w3.org/ns/prov#
+              rdfs: http://www.w3.org/2000/01/rdf-schema#
+              schema: http://schema.org/
+            '@id': schema:creator
+          name: schema:name
+          prov: http://www.w3.org/ns/prov#
+          schema: http://schema.org/
+          updated: schema:dateUpdated
+          version: schema:schemaVersion
+        '@id': schema:isPartOf
+      added: schema:dateCreated
+      based_on: schema:isBasedOn
+      creator:
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+          _id: '@id'
+          affiliation: schema:affiliation
+          alternate_name: schema:alternateName
+          email: schema:email
+          label: rdfs:label
+          name: schema:name
+          prov: http://www.w3.org/ns/prov#
+          rdfs: http://www.w3.org/2000/01/rdf-schema#
+          schema: http://schema.org/
+        '@id': schema:creator
+      name: schema:name
+      path: prov:atLocation
+      prov: http://www.w3.org/ns/prov#
+      schema: http://schema.org/
+      url: schema:url
+      wfprov: http://purl.org/wf4ever/wfprov#
+    '@id': schema:hasPart
+  identifier: schema:identifier
+  in_language:
+    '@context':
+      '@version': 1.1
+      alternate_name: schema:alternateName
+      name: schema:name
+      schema: http://schema.org/
+    '@id': schema:inLanguage
+  keywords: schema:keywords
+  license: schema:license
+  name: schema:name
+  path: prov:atLocation
+  prov: http://www.w3.org/ns/prov#
+  same_as:
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+      '@version': 1.1
+      _id: '@id'
+      schema: http://schema.org/
+      url: schema:url
+    '@id': schema:sameAs
+  schema: http://schema.org/
+  short_name: schema:alternateName
+  tags:
+    '@context':
+      '@version': 1.1
+      _id: '@id'
+      commit: schema:location
+      created: schema:startDate
+      dataset: schema:about
+      description: schema:description
+      name: schema:name
+      schema: http://schema.org/
+    '@id': schema:subjectOf
+  url: schema:url
+  version: schema:version
+  wfprov: http://purl.org/wf4ever/wfprov#
+'@type':
+- prov:Entity
+- schema:Dataset
+- wfprov:Artifact
+_id: https://renkulab.io/datasets/76e162dd-2c00-42e3-a7b0-ca4d1687cdea
+_label: 76e162dd-2c00-42e3-a7b0-ca4d1687cdea
+_project: null
+created: '2020-05-20T17:07:46.113976+00:00'
+creator:
+- '@type':
+  - prov:Person
+  - schema:Person
+  _id: mailto:almaan@kth.se
+  affiliation: null
+  alternate_name: null
+  email: almaan@kth.se
+  label: Alma Andersson
+  name: Alma Andersson
+date_published: null
+description: Datasets for spatial transcriptomics analysis
+files: []
+identifier: 76e162dd-2c00-42e3-a7b0-ca4d1687cdea
+in_language: null
+keywords: []
+license: null
+name: spatial
+path: .renku/datasets/76e162dd-2c00-42e3-a7b0-ca4d1687cdea
+same_as: null
+short_name: spatial
+tags: []
+url: https://renkulab.io/datasets/76e162dd-2c00-42e3-a7b0-ca4d1687cdea
+version: null

.renku/refs/datasets/spatial

+../../datasets/76e162dd-2c00-42e3-a7b0-ca4d1687cdea/metadata.yml
\ No newline at end of file

.renku/refs/datasets/spatial-transcriptomics

+../../datasets/cf77f84c-c7ba-405c-b50f-2f8ed73fd0c7/metadata.yml
\ No newline at end of file