Datasets:
SOURCES: name the public PanCanAtlas artifacts, not the cluster path
Browse filesBoth HLA tables are published TCGA PanCanAtlas files; the filenames carry the
provenance and the internal staging root added nothing.
- SOURCES.md +2 -2
SOURCES.md
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@@ -22,8 +22,8 @@ re-formatted from experimental data.
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| Clinical annotation | `meta/tcga_annotation_standardized.tsv` | disease/cancer_type/stage/therapy/response/OS/PFS/AE (covers 9,104 / 9,591) |
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| Read counts | `meta/readcount/tcga_read_counts.tsv` | per-BAM `Total_Reads` / `Aligned_Reads`, keyed by aliquot UUID |
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| GDC sample sheets | `meta/readcount/tcga_*_sample_sheet.tsv` | UUID → TCGA barcode (`Case ID`, `Sample ID`) |
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| HLA class-I (primary) |
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| HLA class-I (fill) |
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## Public origin
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| Clinical annotation | `meta/tcga_annotation_standardized.tsv` | disease/cancer_type/stage/therapy/response/OS/PFS/AE (covers 9,104 / 9,591) |
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| Read counts | `meta/readcount/tcga_read_counts.tsv` | per-BAM `Total_Reads` / `Aligned_Reads`, keyed by aliquot UUID |
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| GDC sample sheets | `meta/readcount/tcga_*_sample_sheet.tsv` | UUID → TCGA barcode (`Case ID`, `Sample ID`) |
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| HLA class-I (primary) | TCGA PanCanAtlas PanImmune, `tcga_hla_alleles.tsv` | TCGA PanImmune A/B/C calls, donor-level (`patientBarcode`) — 8,507 donors |
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| HLA class-I (fill) | TCGA PanCanAtlas OptiType, `OptiTypeCallsHLA_20171207.tsv` | OptiType A/B/C per aliquot (`aliquot_id`); collapsed to donor, used only where PanImmune lacks the donor |
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## Public origin
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