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update to have more inputs
1 parent e40872a commit b41c5f9

11 files changed

Lines changed: 59 additions & 14 deletions

‎analyses/input/test-input.tsv‎

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Kids_First_Participant_ID cohort_participant_id chr start end ref alt distance source Consequence Hugo_Symbol plot_group broad_histology
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PT_JYZA0PNV C95571 chr11 108315911 108315911 G A 0 germline missense_variant&splice_region_variant ATM Low-grade glioma Low-grade astrocytic tumor
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PT_BQFM8NH0 C2722113 chr11 44171609 44171609 A G -2 germline splice_acceptor_variant EXT2 Non-neoplastic tumor Benign tumor
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PT_40HTPY49 C99753 chr17 31201036 31201036 G A -1 somatic splice_acceptor_variant NF1 DIPG or DMG Diffuse astrocytic and oligodendroglial tumor
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PT_TF84B5J9 C3533913 chr1 240801514 240801514 G A -6 somatic splice_region_variant,intron_variant,splice_polypyrimidine_tract_variant RGS7 Oligodendroglioma Diffuse astrocytic and oligodendroglial tumor
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PT_RDWE18AC C4114473 chr12 6951966 6951966 C T -17 somatic intron_variant,splice_polypyrimidine_tract_variant PTPN6 Other high-grade glioma Diffuse astrocytic and oligodendroglial tumor
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PT_4347ZBEX C216603 chr11 108272506 108272506 A G -26 somatic intron_variant ATM Other high-grade glioma Diffuse astrocytic and oligodendroglial tumor

‎analyses/plots/ATM-PT_4347ZBEX-chr11:108271506-108273506.pdf‎

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‎analyses/plots/NF1-PT_40HTPY49-chr17:31200036-31202036.pdf‎

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‎analyses/plots/PTPN6-PT_RDWE18AC-chr12:6950966-6952966.pdf‎

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‎analyses/plots/RGS7-PT_TF84B5J9-chr1:240800514-240802514.pdf‎

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‎analyses/results/PT_40HTPY49-NF1-chr17:31200036-31202036.tsv‎

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PT_40HTPY49 bams/663ed64d-47e8-4bec-a0fb-79a61b9574c8-PT_40HTPY49-NF1-chr17:31200036-31202036.bam 663ed64d-47e8-4bec-a0fb-79a61b9574c8

‎analyses/results/PT_4347ZBEX-ATM-chr11:108271506-108273506.tsv‎

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PT_4347ZBEX bams/1c03b784-4cd1-44a7-a089-d81045ecb7f5-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam 1c03b784-4cd1-44a7-a089-d81045ecb7f5
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PT_4347ZBEX bams/8c59e6b4-3553-4ac3-9fbb-2b0ff8225a57-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam 8c59e6b4-3553-4ac3-9fbb-2b0ff8225a57
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PT_4347ZBEX bams/0d9c68f8-a507-4a50-b52c-cc4f80a43e61-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam 0d9c68f8-a507-4a50-b52c-cc4f80a43e61
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PT_4347ZBEX bams/f1f38907-2974-42a5-a45c-9d3ac1c919df-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam f1f38907-2974-42a5-a45c-9d3ac1c919df
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PT_4347ZBEX bams/9aa5f343-bea5-40a5-ad10-fc35b035db2c-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam 9aa5f343-bea5-40a5-ad10-fc35b035db2c
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PT_4347ZBEX bams/07db69a8-5f22-4d6c-9b0c-3de147750de9-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam 07db69a8-5f22-4d6c-9b0c-3de147750de9

‎analyses/results/PT_RDWE18AC-PTPN6-chr12:6950966-6952966.tsv‎

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PT_RDWE18AC bams/a511f66a-f51c-48b8-bba4-788f0a4024bb-PT_RDWE18AC-PTPN6-chr12:6950966-6952966.bam a511f66a-f51c-48b8-bba4-788f0a4024bb

‎analyses/results/PT_TF84B5J9-RGS7-chr1:240800514-240802514.tsv‎

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PT_TF84B5J9 bams/8c898407-550a-4a12-8e02-70d3837475d5-PT_TF84B5J9-RGS7-chr1:240800514-240802514.bam 8c898407-550a-4a12-8e02-70d3837475d5

‎analyses/results/bams/md5sum.txt‎

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b813cb028bbacb56f7e86146dfcec3a2 results/bams/49629206-ef0a-4636-83cf-b37021e60def-PT_JYZA0PNV-ATM-chr11:108305911-108325911.bam
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881cf3a5cf83ff062256184f072c5ca9 results/bams/49629206-ef0a-4636-83cf-b37021e60def-PT_JYZA0PNV-ATM-chr11:108305911-108325911.bam.bai
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cd15f9a0ca11bf83e2682325004f031e results/bams/ccc08827-804f-4966-95bd-8fc960e45093-PT_BQFM8NH0-EXT2-chr11:44161609-44181609.bam
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d3cb164ed575c1859886acac74ba6183 results/bams/ccc08827-804f-4966-95bd-8fc960e45093-PT_BQFM8NH0-EXT2-chr11:44161609-44181609.bam.bai
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f62bf553c3db2b9fb144df554477489d results/bams/07db69a8-5f22-4d6c-9b0c-3de147750de9-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam
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4f3e4ca851c4355d4035a3175c905a3c results/bams/07db69a8-5f22-4d6c-9b0c-3de147750de9-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam.bai
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9b6df5998f8788ae28a7daa3fd6c5bf8 results/bams/0d9c68f8-a507-4a50-b52c-cc4f80a43e61-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam
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25b4296848b1ce76e59176dd539d74e4 results/bams/0d9c68f8-a507-4a50-b52c-cc4f80a43e61-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam.bai
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70dd448523195a0eb2bfc5548da7ee1b results/bams/1c03b784-4cd1-44a7-a089-d81045ecb7f5-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam
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0fa550bdf250cc6992e39cce08296ba5 results/bams/1c03b784-4cd1-44a7-a089-d81045ecb7f5-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam.bai
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0c037b4944eeb7ebb98fed6783c6fc6a results/bams/663ed64d-47e8-4bec-a0fb-79a61b9574c8-PT_40HTPY49-NF1-chr17:31200036-31202036.bam
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1c4217a69be28488abafd02f7011cc6e results/bams/663ed64d-47e8-4bec-a0fb-79a61b9574c8-PT_40HTPY49-NF1-chr17:31200036-31202036.bam.bai
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0d0489d210a8380b56472aea82a47ffb results/bams/8c59e6b4-3553-4ac3-9fbb-2b0ff8225a57-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam
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12068a3499bebeb97b0ddaad92743536 results/bams/8c59e6b4-3553-4ac3-9fbb-2b0ff8225a57-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam.bai
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123959c5f584da5df0fa7b223496e262 results/bams/8c898407-550a-4a12-8e02-70d3837475d5-PT_TF84B5J9-RGS7-chr1:240800514-240802514.bam
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75c68e7eadb2ca948fc4b39d65dcf873 results/bams/8c898407-550a-4a12-8e02-70d3837475d5-PT_TF84B5J9-RGS7-chr1:240800514-240802514.bam.bai
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0ed8b395e9181ba5774c6a42c09e3819 results/bams/9aa5f343-bea5-40a5-ad10-fc35b035db2c-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam
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cbb569ea87983495397ff0a577453036 results/bams/9aa5f343-bea5-40a5-ad10-fc35b035db2c-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam.bai
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0fd43e5e8a0391bec1e0c8c3f502d3e7 results/bams/a511f66a-f51c-48b8-bba4-788f0a4024bb-PT_RDWE18AC-PTPN6-chr12:6950966-6952966.bam
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17cdd453ac057423c953502cb398845e results/bams/a511f66a-f51c-48b8-bba4-788f0a4024bb-PT_RDWE18AC-PTPN6-chr12:6950966-6952966.bam.bai
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98868b9270b6fad2736bdf78aaac9a59 results/bams/f1f38907-2974-42a5-a45c-9d3ac1c919df-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam
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5f4c6b31d9d67fd23772195a7254eb1c results/bams/f1f38907-2974-42a5-a45c-9d3ac1c919df-PT_4347ZBEX-ATM-chr11:108271506-108273506.bam.bai

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