Upload 7 files

data/.ipynb_checkpoints/data1.hnsc.p3-checkpoint.csv

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data/.ipynb_checkpoints/standardized.4.scores.458.hnscc-checkpoint.csv

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data/.ipynb_checkpoints/tcga-hnscc-patients-checkpoint.json

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+        "TCGA-KU-A6H8",
+        "TCGA-CV-7236",
+        "TCGA-CV-5973",
+        "TCGA-CN-4723",
+        "TCGA-MT-A51W",
+        "TCGA-CV-7248",
+        "TCGA-CV-5979",
+        "TCGA-D6-8568",
+        "TCGA-CV-A6K1",
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+        "TCGA-BB-A6UO",
+        "TCGA-MT-A67D",
+        "TCGA-D6-A4Z9",
+        "TCGA-CV-7252",
+        "TCGA-D6-A6ES",
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+        "TCGA-CV-7415",
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+        "TCGA-T2-A6X0",
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+        "TCGA-T2-A6X2",
+        "TCGA-HD-8634",
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+        "TCGA-T3-A92M",
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+        "TCGA-HD-8635",
+        "TCGA-4P-AA8J",
+        "TCGA-HD-A4C1",
+        "TCGA-BA-4074",
+        "TCGA-UF-A7JF",
+        "TCGA-UF-A71B",
+        "TCGA-IQ-A61O",
+        "TCGA-IQ-A61E",
+        "TCGA-UF-A7JH",
+        "TCGA-BA-4078",
+        "TCGA-IQ-A6SH",
+        "TCGA-WA-A7H4",
+        "TCGA-IQ-A61I",
+        "TCGA-BA-5151"
+    ],
+    "restricted": [
+        "TCGA-CN-6988",
+        "TCGA-CV-7423",
+        "TCGA-UF-A7JA",
+        "TCGA-IQ-A61H",
+        "TCGA-CV-A465",
+        "TCGA-BA-4076",
+        "TCGA-KU-A66S",
+        "TCGA-MZ-A7D7",
+        "TCGA-CN-4725",
+        "TCGA-CN-A641",
+        "TCGA-HD-7831",
+        "TCGA-QK-A6IG",
+        "TCGA-CV-A463",
+        "TCGA-UF-A71B",
+        "TCGA-CQ-5323",
+        "TCGA-CV-A45Z",
+        "TCGA-BA-7269",
+        "TCGA-CV-6959",
+        "TCGA-DQ-7592",
+        "TCGA-IQ-A61E",
+        "TCGA-CN-5374",
+        "TCGA-P3-A5Q5",
+        "TCGA-CV-5444",
+        "TCGA-CN-6013",
+        "TCGA-F7-A50G",
+        "TCGA-BA-5153",
+        "TCGA-CQ-5334",
+        "TCGA-F7-8489",
+        "TCGA-D6-6826",
+        "TCGA-BA-A6DB"
+    ]
+}

data/data1.hnsc.p3.csv

@@ -0,0 +1,354 @@
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data/data2.hnsc.p3.csv

@@ -0,0 +1,31 @@
+,PatientID,Class
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data/standardized.4.scores.458.hnscc.csv

@@ -0,0 +1,459 @@
+PatientID,GMS,TMB,CNV,Immune_score
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data/tcga-hnscc-patients.json

@@ -0,0 +1,389 @@
+{
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+        "TCGA-DQ-5625",
+        "TCGA-CN-5359",
+        "TCGA-CN-5369",
+        "TCGA-CN-5360",
+        "TCGA-CN-4740",
+        "TCGA-P3-A6SW",
+        "TCGA-F7-8489",
+        "TCGA-DQ-5630",
+        "TCGA-F7-A50G",
+        "TCGA-CN-5373",
+        "TCGA-QK-A6IJ",
+        "TCGA-CV-6942",
+        "TCGA-CN-5374",
+        "TCGA-CV-7427",
+        "TCGA-F7-A61S",
+        "TCGA-QK-A6VC",
+        "TCGA-CV-A45Y",
+        "TCGA-TN-A7HI",
+        "TCGA-F7-A620",
+        "TCGA-CV-A460",
+        "TCGA-CN-6016",
+        "TCGA-CV-A461",
+        "TCGA-CV-A45W",
+        "TCGA-UF-A7JS",
+        "TCGA-CV-A468",
+        "TCGA-CV-A6JD",
+        "TCGA-UF-A7JV",
+        "TCGA-UF-A7JJ",
+        "TCGA-BA-5152",
+        "TCGA-BA-5153",
+        "TCGA-CN-6997",
+        "TCGA-CN-6024",
+        "TCGA-CN-6988",
+        "TCGA-CN-A63U",
+        "TCGA-CN-6992",
+        "TCGA-CN-A63W",
+        "TCGA-CN-A641",
+        "TCGA-CQ-5332",
+        "TCGA-CV-5432",
+        "TCGA-CQ-6225",
+        "TCGA-CQ-6228",
+        "TCGA-BA-6868",
+        "TCGA-CV-5440",
+        "TCGA-BA-A6DE",
+        "TCGA-CV-5435",
+        "TCGA-CQ-7072",
+        "TCGA-CQ-A4CI",
+        "TCGA-CQ-A4C9",
+        "TCGA-BA-A6DI",
+        "TCGA-CQ-7065",
+        "TCGA-CV-6960",
+        "TCGA-CV-5442",
+        "TCGA-BB-4227",
+        "TCGA-BA-A6DL",
+        "TCGA-CV-7180",
+        "TCGA-BA-A8YP",
+        "TCGA-CV-5977",
+        "TCGA-CX-7086",
+        "TCGA-CV-7245",
+        "TCGA-BB-8601",
+        "TCGA-CQ-A4CG",
+        "TCGA-CV-A6JY",
+        "TCGA-BB-4224",
+        "TCGA-CV-7247",
+        "TCGA-BB-A5HY",
+        "TCGA-D6-6827",
+        "TCGA-CN-4725",
+        "TCGA-BB-A5HZ",
+        "TCGA-D6-A6EO",
+        "TCGA-CV-6441",
+        "TCGA-MZ-A7D7",
+        "TCGA-D6-A6EP",
+        "TCGA-CV-6003",
+        "TCGA-CV-7414",
+        "TCGA-D6-6823",
+        "TCGA-CN-4727",
+        "TCGA-C9-A47Z",
+        "TCGA-DQ-7588",
+        "TCGA-CV-7253",
+        "TCGA-P3-A5Q6",
+        "TCGA-P3-A6T3",
+        "TCGA-P3-A5QA",
+        "TCGA-CV-7255",
+        "TCGA-P3-A6T4",
+        "TCGA-CN-4730",
+        "TCGA-CV-7421",
+        "TCGA-CV-6945",
+        "TCGA-CV-6935",
+        "TCGA-MZ-A6I9",
+        "TCGA-DQ-5629",
+        "TCGA-CV-7430",
+        "TCGA-P3-A6T6",
+        "TCGA-CV-7423",
+        "TCGA-CV-6940",
+        "TCGA-P3-A6SX",
+        "TCGA-DQ-5631",
+        "TCGA-CV-6951",
+        "TCGA-P3-A6T8",
+        "TCGA-P3-A6T0",
+        "TCGA-CV-A45P",
+        "TCGA-CN-6010",
+        "TCGA-QK-AA3J",
+        "TCGA-QK-A6VB",
+        "TCGA-CV-7437",
+        "TCGA-F7-A61V",
+        "TCGA-QK-A8Z7",
+        "TCGA-F7-A61W",
+        "TCGA-QK-A8Z8",
+        "TCGA-TN-A7HJ",
+        "TCGA-HD-A634",
+        "TCGA-F7-A622",
+        "TCGA-CV-A45U",
+        "TCGA-UF-A71E",
+        "TCGA-QK-A8ZA",
+        "TCGA-UF-A7JA",
+        "TCGA-UF-A719",
+        "TCGA-CV-A465",
+        "TCGA-UF-A7JC",
+        "TCGA-UF-A71A",
+        "TCGA-UF-A7JD",
+        "TCGA-IQ-7632",
+        "TCGA-HD-A633",
+        "TCGA-BA-4076",
+        "TCGA-UF-A71D",
+        "TCGA-IQ-A6SG",
+        "TCGA-IQ-A61G",
+        "TCGA-IQ-A61H",
+        "TCGA-UF-A7JK",
+        "TCGA-KU-A66S",
+        "TCGA-KU-A66T",
+        "TCGA-CN-6020",
+        "TCGA-CN-6994",
+        "TCGA-CN-6021",
+        "TCGA-CN-A63T",
+        "TCGA-CN-6998",
+        "TCGA-CN-A63V",
+        "TCGA-BA-5555",
+        "TCGA-CQ-5323",
+        "TCGA-CQ-5324",
+        "TCGA-CN-A642",
+        "TCGA-CV-6954",
+        "TCGA-BA-6873",
+        "TCGA-CQ-5326",
+        "TCGA-CV-6961",
+        "TCGA-CQ-6227",
+        "TCGA-BA-7269",
+        "TCGA-CQ-6218",
+        "TCGA-CV-5434",
+        "TCGA-CQ-7069",
+        "TCGA-CV-5430",
+        "TCGA-CQ-7071",
+        "TCGA-CQ-6229",
+        "TCGA-CQ-6220",
+        "TCGA-BA-6869",
+        "TCGA-BA-6870",
+        "TCGA-CV-7089",
+        "TCGA-CV-6959",
+        "TCGA-CV-5441",
+        "TCGA-CQ-A4CH",
+        "TCGA-CQ-A4C6",
+        "TCGA-BA-A6DG",
+        "TCGA-CQ-6223",
+        "TCGA-BA-6871",
+        "TCGA-CV-7100",
+        "TCGA-CV-5436",
+        "TCGA-BA-A6D8",
+        "TCGA-BA-6872",
+        "TCGA-CV-A6JM",
+        "TCGA-CV-7101",
+        "TCGA-BA-A6DA",
+        "TCGA-CV-A6JN",
+        "TCGA-CV-7091",
+        "TCGA-CV-5970",
+        "TCGA-CV-5439",
+        "TCGA-BB-4228",
+        "TCGA-CQ-A4CB",
+        "TCGA-CV-A6K2",
+        "TCGA-CV-7102",
+        "TCGA-CV-7095",
+        "TCGA-CQ-A4CD",
+        "TCGA-CV-A6JT",
+        "TCGA-CV-7097",
+        "TCGA-CQ-A4CE",
+        "TCGA-CV-A6JU",
+        "TCGA-BB-A5HU",
+        "TCGA-KU-A6H8",
+        "TCGA-CV-7236",
+        "TCGA-CV-5973",
+        "TCGA-CN-4723",
+        "TCGA-MT-A51W",
+        "TCGA-CV-7248",
+        "TCGA-CV-5979",
+        "TCGA-D6-8568",
+        "TCGA-CV-A6K1",
+        "TCGA-CV-5976",
+        "TCGA-CN-4726",
+        "TCGA-BB-A6UM",
+        "TCGA-MT-A67A",
+        "TCGA-D6-8569",
+        "TCGA-D6-6517",
+        "TCGA-CV-7263",
+        "TCGA-CV-6936",
+        "TCGA-CV-7242",
+        "TCGA-BB-A6UO",
+        "TCGA-MT-A67D",
+        "TCGA-D6-A4Z9",
+        "TCGA-CV-7252",
+        "TCGA-D6-A6ES",
+        "TCGA-D6-A4ZB",
+        "TCGA-CV-7415",
+        "TCGA-CV-6937",
+        "TCGA-C9-A480",
+        "TCGA-D6-A74Q",
+        "TCGA-CN-5356",
+        "TCGA-CN-4737",
+        "TCGA-CN-4729",
+        "TCGA-DQ-5624",
+        "TCGA-CV-7418",
+        "TCGA-CV-7429",
+        "TCGA-CN-4739",
+        "TCGA-P3-A6T5",
+        "TCGA-CN-4731",
+        "TCGA-P3-A5QF",
+        "TCGA-F7-8298",
+        "TCGA-DQ-7592",
+        "TCGA-CV-7422",
+        "TCGA-CV-7411",
+        "TCGA-CV-6948",
+        "TCGA-QK-A6IH",
+        "TCGA-CV-7413",
+        "TCGA-CV-6950",
+        "TCGA-QK-A6II",
+        "TCGA-CN-4741",
+        "TCGA-P3-A6T7",
+        "TCGA-CV-7424",
+        "TCGA-CV-6941",
+        "TCGA-CN-5363",
+        "TCGA-CN-4742",
+        "TCGA-F7-A623",
+        "TCGA-F7-A50I",
+        "TCGA-CV-A45O",
+        "TCGA-CV-7434",
+        "TCGA-QK-A8ZB",
+        "TCGA-CN-5364",
+        "TCGA-QK-A6V9",
+        "TCGA-CN-5355",
+        "TCGA-QK-A64Z",
+        "TCGA-P3-A6T2",
+        "TCGA-F7-A50J",
+        "TCGA-CV-7435",
+        "TCGA-CV-6952",
+        "TCGA-CN-5365",
+        "TCGA-QK-A652",
+        "TCGA-CV-A45X",
+        "TCGA-CN-6011",
+        "TCGA-QK-AA3K",
+        "TCGA-CN-5366",
+        "TCGA-HD-7754",
+        "TCGA-F7-7848",
+        "TCGA-CV-A45Q",
+        "TCGA-CV-7438",
+        "TCGA-CV-6953",
+        "TCGA-T3-A92N",
+        "TCGA-CN-6012",
+        "TCGA-RS-A6TO",
+        "TCGA-CN-5367",
+        "TCGA-HD-7831",
+        "TCGA-QK-A6IG",
+        "TCGA-CV-A45Z",
+        "TCGA-CV-A45R",
+        "TCGA-RS-A6TP",
+        "TCGA-HD-7832",
+        "TCGA-H7-A6C4",
+        "TCGA-QK-A8Z9",
+        "TCGA-T2-A6WZ",
+        "TCGA-HD-8224",
+        "TCGA-CV-A463",
+        "TCGA-CV-A45V",
+        "TCGA-UF-A7J9",
+        "TCGA-UF-A718",
+        "TCGA-T2-A6X0",
+        "TCGA-HD-8314",
+        "TCGA-HD-7229",
+        "TCGA-CV-A464",
+        "TCGA-IQ-A61J",
+        "TCGA-T2-A6X2",
+        "TCGA-HD-8634",
+        "TCGA-HD-7753",
+        "TCGA-T3-A92M",
+        "TCGA-IQ-7630",
+        "TCGA-HD-8635",
+        "TCGA-4P-AA8J",
+        "TCGA-HD-A4C1",
+        "TCGA-BA-4074",
+        "TCGA-UF-A7JF",
+        "TCGA-UF-A71B",
+        "TCGA-IQ-A61O",
+        "TCGA-IQ-A61E",
+        "TCGA-UF-A7JH",
+        "TCGA-BA-4078",
+        "TCGA-IQ-A6SH",
+        "TCGA-WA-A7H4",
+        "TCGA-IQ-A61I",
+        "TCGA-BA-5151"
+    ],
+    "restricted": [
+        "TCGA-CN-6988",
+        "TCGA-CV-7423",
+        "TCGA-UF-A7JA",
+        "TCGA-IQ-A61H",
+        "TCGA-CV-A465",
+        "TCGA-BA-4076",
+        "TCGA-KU-A66S",
+        "TCGA-MZ-A7D7",
+        "TCGA-CN-4725",
+        "TCGA-CN-A641",
+        "TCGA-HD-7831",
+        "TCGA-QK-A6IG",
+        "TCGA-CV-A463",
+        "TCGA-UF-A71B",
+        "TCGA-CQ-5323",
+        "TCGA-CV-A45Z",
+        "TCGA-BA-7269",
+        "TCGA-CV-6959",
+        "TCGA-DQ-7592",
+        "TCGA-IQ-A61E",
+        "TCGA-CN-5374",
+        "TCGA-P3-A5Q5",
+        "TCGA-CV-5444",
+        "TCGA-CN-6013",
+        "TCGA-F7-A50G",
+        "TCGA-BA-5153",
+        "TCGA-CQ-5334",
+        "TCGA-F7-8489",
+        "TCGA-D6-6826",
+        "TCGA-BA-A6DB"
+    ]
+}