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Updating All site pages and links and counts and tables with latest data
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‎.github/workflows/main.yml

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on:
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push:
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branches:
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- builder_branch_JJ
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- docs_update_4_5_24
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- doc_update_4_23_24
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- docker-build-multi
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# Allows you to run this workflow manually from the Actions tab
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workflow_dispatch:
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‎docs/_data/beataml_table.csv

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"Dataset","Unique_Entrez_IDs","Unique_Sample_IDs"
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"Transcriptomics",18306,707
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"Proteomics",7356,210
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"Mutations",3454,871
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"Transcriptomics",15029,707
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"Proteomics",7267,210
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"Mutations",3403,871

‎docs/_data/broad_sanger_table.csv

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"Dataset","Unique_Entrez_IDs","Unique_Sample_IDs"
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"Transcriptomics",37290,1697
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"Proteomics",12936,1008
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"Copy_number",24766,1790
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"Mutations",21658,1729
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"Transcriptomics",19335,1697
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"Proteomics",12777,1008
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"Copy_number",19210,1790
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"Mutations",20394,1729

‎docs/_data/cptac_table.csv

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"Dataset","Unique_Entrez_IDs","Unique_Sample_IDs"
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"Transcriptomics",38406,1113
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"Proteomics",15273,1086
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"Copy_number",38394,1024
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"Transcriptomics",19354,1113
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"Proteomics",15015,1086
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"Copy_number",19359,1024
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"Mutations",18866,833

‎docs/_data/figshare_latest.yml

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article_link: https://figshare.com/articles/dataset/CODERData0_0_22/25537288
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article_link: https://figshare.com/articles/dataset/CODERData0_1_29/25935544
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file_download:
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beataml_drugs.tsv.gz: https://ndownloader.figshare.com/files/44184881
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beataml_experiments.csv.gz: https://ndownloader.figshare.com/files/44184929

‎docs/_data/hcmi_table.csv

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"Dataset","Unique_Entrez_IDs","Unique_Sample_IDs"
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"Transcriptomics",19490,396
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"Mutations",16915,289
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"Copy_number",38879,282
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"Transcriptomics",19298,479
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"Mutations",17702,368
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"Copy_number",19316,350

‎docs/_data/mpnst_table.csv

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"Dataset","Unique_Entrez_IDs","Unique_Sample_IDs"
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"Transcriptomics",9809,35
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"Copy_number",27985,30
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"Mutations",13409,29
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"Transcriptomics",5530,35
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"Copy_number",19309,32
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"Mutations",13343,29
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"Proteomics",9224,6

‎docs/_data/stats.yml

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beataml:
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cancer_types: 1
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drugs: 151
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genes: 19059
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samples: 1022
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broad_sanger:
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cell_lines: 204
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drugs: 57717
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genes: 25480
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samples: 1861
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cancer_types: 106
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samples: 2053
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drugs: 56082
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transcriptomics: 1697
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proteomics: 1008
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mutations: 1729
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copy_number: 1790
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cptac:
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cancer_types: 10
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drugs: 0
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genes: 38428
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samples: 1139
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drugs: 0
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transcriptomics: 1113
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proteomics: 1086
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mutations: 833
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copy_number: 1024
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hcmi:
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cancer_types: 29
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samples: 758
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drugs: 0
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genes: 39098
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samples: 909
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transcriptomics: 396
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proteomics: 0
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mutations: 289
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copy_number: 282
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beataml:
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cancer_types: 1
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samples: 1022
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drugs: 163
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transcriptomics: 707
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proteomics: 210
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mutations: 871
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copy_number: 0
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mpnst:
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cancer_types: 1
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drugs: 25
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genes: 32003
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samples: 50
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drugs: 25
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transcriptomics: 35
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proteomics: 6
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mutations: 29
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copy_number: 32

‎docs/assets/stats/Fig6_Sample_Summary.png

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‎docs/assets/stats/beataml_circos.png

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‎docs/assets/stats/broad_sanger_circos.png

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‎docs/assets/stats/cptac_circos.png

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‎docs/assets/stats/hcmi_circos.png

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‎docs/assets/stats/mpnst_circos.png

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‎docs/index.md

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### Datasets
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<table>
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<thead>
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<tr>
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<th>Dataset</th>
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<th>Cancer Types</th>
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<th>Samples</th>
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<th>Genes</th>
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<th>Drugs</th>
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<th>Transcriptomics</th>
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<th>Proteomics</th>
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<tbody>
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<tr>
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<td><a href="datasets/broad_sanger">Broad Sanger</a></td>
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<td>{{site.data.stats.broad_sanger.cell_lines}}</td>
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<td>{{site.data.stats.broad_sanger.cancer_types}}</td>
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<td>{{site.data.stats.broad_sanger.samples}}</td>
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<td>{{site.data.stats.broad_sanger.genes}}</td>
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<td>{{site.data.stats.broad_sanger.drugs}}</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>{{site.data.stats.broad_sanger.transcriptomics}}</td>
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<td>{{site.data.stats.broad_sanger.proteomics}}</td>
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<td>{{site.data.stats.broad_sanger.mutations}}</td>
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<td>{{site.data.stats.broad_sanger.copy_number}}</td>
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</tr>
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<tr>
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<td><a href="datasets/cptac">CPTAC</a></td>
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<td>{{site.data.stats.cptac.cancer_types}}</td>
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<td>{{site.data.stats.cptac.samples}}</td>
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<td>{{site.data.stats.cptac.genes}}</td>
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<td>{{site.data.stats.cptac.drugs}}</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>{{site.data.stats.cptac.transcriptomics}}</td>
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<td>{{site.data.stats.cptac.proteomics}}</td>
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<td>{{site.data.stats.cptac.mutations}}</td>
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<td>{{site.data.stats.cptac.copy_number}}</td>
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</tr>
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<tr>
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<td><a href="datasets/hcmi">HCMI</a></td>
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<td>{{site.data.stats.hcmi.cancer_types}}</td>
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<td>{{site.data.stats.hcmi.samples}}</td>
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<td>{{site.data.stats.hcmi.genes}}</td>
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<td>{{site.data.stats.hcmi.drugs}}</td>
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<td>Yes</td>
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<td>No</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>{{site.data.stats.hcmi.transcriptomics}}</td>
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<td>{{site.data.stats.hcmi.proteomics}}</td>
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<td>{{site.data.stats.hcmi.mutations}}</td>
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<td>{{site.data.stats.hcmi.copy_number}}</td>
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</tr>
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<tr>
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<td><a href="datasets/beataml">BeatAML</a></td>
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<td>{{site.data.stats.beataml.cancer_types}}</td>
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<td>{{site.data.stats.beataml.samples}}</td>
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<td>{{site.data.stats.beataml.genes}}</td>
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<td>{{site.data.stats.beataml.drugs}}</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>No</td>
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<td>No</td>
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<td>{{site.data.stats.beataml.transcriptomics}}</td>
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<td>{{site.data.stats.beataml.proteomics}}</td>
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<td>{{site.data.stats.beataml.mutations}}</td>
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<td>{{site.data.stats.beataml.copy_number}}</td>
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</tr>
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<tr>
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<td><a href="datasets/mpnst">MPNST</a></td>
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<td>{{site.data.stats.mpnst.cancer_types}}</td>
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<td>{{site.data.stats.mpnst.samples}}</td>
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<td>{{site.data.stats.mpnst.genes}}</td>
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<td>{{site.data.stats.mpnst.drugs}}</td>
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<td>Yes</td>
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<td>No</td>
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<td>Yes</td>
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<td>Yes</td>
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<td>{{site.data.stats.mpnst.transcriptomics}}</td>
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<td>{{site.data.stats.mpnst.proteomics}}</td>
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<td>{{site.data.stats.mpnst.mutations}}</td>
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<td>{{site.data.stats.mpnst.copy_number}}</td>
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</tr>
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</tbody>
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</table>
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<!-- <div class="dataset-section">
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{% assign datasets = 'depmap,cptac,hcmi,beataml' | split: ',' %}
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{% for dataset in datasets %}

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