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Downloaded four UCEC WXS to storage1
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* Main reason is to analyze WXS for read length and depth
* work dir: /home/m.wyczalkowski/Projects/CPTAC3/import/20210622.WXS_4
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@mwyczalkowski
mwyczalkowski committed Jun 22, 2021
1 parent 6266d70 commit b373f73
Showing 1 changed file with 9 additions and 5 deletions.
14 changes: 9 additions & 5 deletions BamMap/storage1.BamMap.dat
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Expand Up @@ -97,6 +97,8 @@ C3L-00136.WGS.N.hg38 C3L-00136 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowsk
C3L-00136.WGS.T.hg38 C3L-00136 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/9cb2d2f8-a700-4dbf-bc69-cb34274209b9/0da07c96-e95e-45df-b12f-8c745696f271_gdc_realn.bam 99707787740 BAM hg38 9cb2d2f8-a700-4dbf-bc69-cb34274209b9 storage1
C3L-00137.WGS.N.hg38 C3L-00137 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/3183b3b5-5fdf-4f74-928e-7493bd04c1eb/552d7534-1fd1-490b-8751-9dff1bf55569_gdc_realn.bam 86049366669 BAM hg38 3183b3b5-5fdf-4f74-928e-7493bd04c1eb storage1
C3L-00137.WGS.T.hg38 C3L-00137 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/be294530-6817-4729-b01c-e2845ddabf79/6b8b5928-258f-4f93-9e52-516db4562c2d_gdc_realn.bam 93619436588 BAM hg38 be294530-6817-4729-b01c-e2845ddabf79 storage1
C3L-00137.WXS.N.hg38 C3L-00137 UCEC WXS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/d5a11391-8b84-4be2-8a8e-62d1e646b786/552d7534-1fd1-490b-8751-9dff1bf55569_gdc_realn.bam 29560881189 BAM hg38 d5a11391-8b84-4be2-8a8e-62d1e646b786 storage1
C3L-00137.WXS.T.hg38 C3L-00137 UCEC WXS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/24d0c8fa-2bb4-465b-96f7-680566a44c2f/6b8b5928-258f-4f93-9e52-516db4562c2d_gdc_realn.bam 46556851624 BAM hg38 24d0c8fa-2bb4-465b-96f7-680566a44c2f storage1
C3L-00139.WGS.N.hg38 C3L-00139 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/eaab07a2-6162-4605-a1ba-8ff3a0bebb60/f72de443-e927-4cbf-a81d-3c906af657db_gdc_realn.bam 196412539714 BAM hg38 eaab07a2-6162-4605-a1ba-8ff3a0bebb60 storage1
C3L-00139.WGS.T.hg38 C3L-00139 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/e8a2f8dd-5e48-4ebe-a47f-b933e330fd60/41bf607b-596b-4c43-9cd5-f245cf6e15fe_gdc_realn.bam 195288370394 BAM hg38 e8a2f8dd-5e48-4ebe-a47f-b933e330fd60 storage1
C3L-00140.WGS.A.hg38 C3L-00140 LUAD WGS tissue_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/a199b1e5-5139-4543-a8e4-fcfcebf60775/65540895-ccaa-40a2-ae4d-912f37356c1a_wgs_gdc_realn.bam 78009533362 BAM hg38 a199b1e5-5139-4543-a8e4-fcfcebf60775 storage1
Expand Down Expand Up @@ -410,6 +412,8 @@ C3L-00935.WGS.N.hg38 C3L-00935 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowsk
C3L-00935.WGS.T.hg38 C3L-00935 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/57d2cd52-d763-4ece-bf74-acc7b7e805e7/8dd384fc-54c9-4764-a288-7c0183f33592_gdc_realn.bam 111230571404 BAM hg38 57d2cd52-d763-4ece-bf74-acc7b7e805e7 storage1
C3L-00938.WGS.N.hg38 C3L-00938 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/382e74bf-0a8c-439e-95c7-88d8d22024fc/354aacf4-4f9f-4177-8882-d3f996822ad9_gdc_realn.bam 105008388487 BAM hg38 382e74bf-0a8c-439e-95c7-88d8d22024fc storage1
C3L-00938.WGS.T.hg38 C3L-00938 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/e4e1ff6a-e89a-4351-969b-1d7c583f21f4/56a3cbdb-5dad-4d22-af0f-f56075c412b9_gdc_realn.bam 88926367833 BAM hg38 e4e1ff6a-e89a-4351-969b-1d7c583f21f4 storage1
C3L-00938.WXS.N.hg38 C3L-00938 UCEC WXS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/98c830a5-8735-4f5f-812d-3e7f7c3aa514/354aacf4-4f9f-4177-8882-d3f996822ad9_gdc_realn.bam 41929157127 BAM hg38 98c830a5-8735-4f5f-812d-3e7f7c3aa514 storage1
C3L-00938.WXS.T.hg38 C3L-00938 UCEC WXS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/94e9963b-ecb8-490c-854c-2043f19224f1/56a3cbdb-5dad-4d22-af0f-f56075c412b9_gdc_realn.bam 32374048491 BAM hg38 94e9963b-ecb8-490c-854c-2043f19224f1 storage1
C3L-00942.WGS.N.hg38 C3L-00942 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/e1b5b9a4-609d-4bb6-a61e-c0c9e499f9ef/3bf4671c-36c5-4987-a7f4-7afefe6422cf_gdc_realn.bam 138875632087 BAM hg38 e1b5b9a4-609d-4bb6-a61e-c0c9e499f9ef storage1
C3L-00942.WGS.T.hg38 C3L-00942 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/b3f61b74-c4f8-4a05-883f-9e04a3b70cdb/c87a0a06-a7c7-46b7-acf9-42ee5469ff63_gdc_realn.bam 113548936344 BAM hg38 b3f61b74-c4f8-4a05-883f-9e04a3b70cdb storage1
C3L-00943.WGS.N.hg38 C3L-00943 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/af343e31-2784-4d31-bc05-9d3b53d1f04e/9a358cdb-35b4-4339-8210-04b5286ab070_wgs_gdc_realn.bam 92031799752 BAM hg38 af343e31-2784-4d31-bc05-9d3b53d1f04e storage1
Expand Down Expand Up @@ -2355,10 +2359,10 @@ C3N-01524.WGS.T.HET_rvrVo2.hg38 C3N-01524 CCRCC WGS tumor /storage1/fs1/m.wyczal
C3N-01524.WGS.T.hg38 C3N-01524 CCRCC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/35dc1060-2818-46b3-9e62-7b105a2cef0b/5e8dd278-8b37-41fa-a827-7f417da498cd_gdc_realn.bam 100101202357 BAM hg38 35dc1060-2818-46b3-9e62-7b105a2cef0b storage1
C3N-01525.WGS.A.hg38 C3N-01525 UCEC WGS tissue_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/d282953d-5e60-457c-966c-f6233255e43f/6636828c-15a6-483d-ade1-0d697874131a_wgs_gdc_realn.bam 98443324645 BAM hg38 d282953d-5e60-457c-966c-f6233255e43f storage1
C3N-01525.WGS.N.hg38 C3N-01525 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/a12a0859-002e-47f5-869f-240c8964517c/983de87d-c165-48e5-963d-970fad538bf7_wgs_gdc_realn.bam 103028139543 BAM hg38 a12a0859-002e-47f5-869f-240c8964517c storage1
C3N-01525.WGS.T.hg38 C3N-01525 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/20b38ee9-5582-478e-8305-db960a2f88e7/8f21acac-0d82-485f-8eb5-072a6e2a866b_wgs_gdc_realn.bam 108433341840 BAM hg38 20b38ee9-5582-478e-8305-db960a2f88e7 storage1
C3N-01525.WGS.T.LMD_PqqDX4.hg38 C3N-01525 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/2cc1e692-94b8-45a2-a8a0-cd2c311800e6/ae065acd-6d37-4cce-9711-f1f08861cd33_wgs_gdc_realn.bam 84193932648 BAM hg38 2cc1e692-94b8-45a2-a8a0-cd2c311800e6 storage1
C3N-01525.WGS.T.LMD_WAANkx.hg38 C3N-01525 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/409cee47-278c-4d2e-bbd7-66e1070f883c/40060511-6d67-4a8a-a00f-9eac7a9c5162_wgs_gdc_realn.bam 94125675917 BAM hg38 409cee47-278c-4d2e-bbd7-66e1070f883c storage1
C3N-01525.WGS.T.LMD_ZEEQq5.hg38 C3N-01525 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/ba9bfacd-e671-4d39-92bb-aa9dbc1a306e/a0a8413c-e99e-4913-97f2-bbfd8e059eac_wgs_gdc_realn.bam 107659002653 BAM hg38 ba9bfacd-e671-4d39-92bb-aa9dbc1a306e storage1
C3N-01525.WGS.T.hg38 C3N-01525 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/20b38ee9-5582-478e-8305-db960a2f88e7/8f21acac-0d82-485f-8eb5-072a6e2a866b_wgs_gdc_realn.bam 108433341840 BAM hg38 20b38ee9-5582-478e-8305-db960a2f88e7 storage1
C3N-01526.WGS.A.hg38 C3N-01526 UCEC WGS tissue_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/a4db60e3-b255-434b-b7fb-5e206b67d60c/8b96444c-9b82-4d36-aaa3-09c03a0e72f3_wgs_gdc_realn.bam 88796923552 BAM hg38 a4db60e3-b255-434b-b7fb-5e206b67d60c storage1
C3N-01526.WGS.N.hg38 C3N-01526 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/9c10e788-99e6-44e1-96f7-7ec4f126c6b0/4b7869c4-9fe6-44b4-a679-433417679ee9_wgs_gdc_realn.bam 79847900603 BAM hg38 9c10e788-99e6-44e1-96f7-7ec4f126c6b0 storage1
C3N-01526.WGS.T.hg38 C3N-01526 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/f44eed9a-be64-491b-86ec-34b2ca2d0f11/fc290422-a284-4bc5-b7aa-bf50020b1109_wgs_gdc_realn.bam 95298152978 BAM hg38 f44eed9a-be64-491b-86ec-34b2ca2d0f11 storage1
Expand Down Expand Up @@ -2610,13 +2614,13 @@ C3N-02027.WGS.T.hg38 C3N-02027 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Activ
C3N-02028.WGS.N.hg38 C3N-02028 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/e249d843-17df-4561-9601-9d5fc2c010f9/7ca9695f-4331-43c0-af16-09fc88247605_wgs_gdc_realn.bam 129489764987 BAM hg38 e249d843-17df-4561-9601-9d5fc2c010f9 storage1
C3N-02028.WGS.T.hg38 C3N-02028 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/8282b5a4-cb70-4721-9266-7a98ef007c7d/8e786c46-68d2-4c88-80ce-479ff84b737a_wgs_gdc_realn.bam 132464736886 BAM hg38 8282b5a4-cb70-4721-9266-7a98ef007c7d storage1
C3N-02030.WGS.N.hg38 C3N-02030 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/6bef4527-ba45-445e-a6da-5b29ba4e4476/138b1cf0-0ac2-46d6-b211-35060de01e80_wgs_gdc_realn.bam 82771416633 BAM hg38 6bef4527-ba45-445e-a6da-5b29ba4e4476 storage1
C3N-02030.WGS.T.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/25031dfb-de49-4bc5-8937-907f5399c3de/a81443de-b861-4bb8-ab23-501062de441f_wgs_gdc_realn.bam 87668734945 BAM hg38 25031dfb-de49-4bc5-8937-907f5399c3de storage1
C3N-02030.WGS.T.LMD_1JZV5R.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/8be06db8-a0a0-443b-be0d-223011fcfa99/271f937c-0f6e-4fe0-bcab-bc0edfab4f76_wgs_gdc_realn.bam 50422331604 BAM hg38 8be06db8-a0a0-443b-be0d-223011fcfa99 storage1
C3N-02030.WGS.T.LMD_3L8Y7M.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/f77935dd-966f-4f62-aaaa-909fbed01106/07ab6239-d919-4d50-9be4-842845513886_wgs_gdc_realn.bam 60009864616 BAM hg38 f77935dd-966f-4f62-aaaa-909fbed01106 storage1
C3N-02030.WGS.T.LMD_5NZAjB.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/0d155398-634d-4993-a4ed-cdae99518bae/e64aabb6-f30a-4466-958c-14a07d5d7e3f_wgs_gdc_realn.bam 91538682587 BAM hg38 0d155398-634d-4993-a4ed-cdae99518bae storage1
C3N-02030.WGS.T.LMD_Y3LV4K.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/199d9247-71a4-4efb-94d1-3ce66012b272/0adb5230-01ea-46f3-8f0a-ae7d91d4c4e6_wgs_gdc_realn.bam 75297593539 BAM hg38 199d9247-71a4-4efb-94d1-3ce66012b272 storage1
C3N-02030.WGS.T.LMD_6O1Ykn.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/5a9899f1-8a2a-4cc8-8d6e-e0c832b52b5a/7913b077-d539-41c8-8060-1ef6258df54c_wgs_gdc_realn.bam 46070776825 BAM hg38 5a9899f1-8a2a-4cc8-8d6e-e0c832b52b5a storage1
C3N-02030.WGS.T.LMD_1JZV5R.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/8be06db8-a0a0-443b-be0d-223011fcfa99/271f937c-0f6e-4fe0-bcab-bc0edfab4f76_wgs_gdc_realn.bam 50422331604 BAM hg38 8be06db8-a0a0-443b-be0d-223011fcfa99 storage1
C3N-02030.WGS.T.LMD_lrwPDl.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/9c2855bb-1dc7-4f7d-9718-fe4353cd1759/dbd52ff5-66e8-40d5-a19b-6cdfb27721e4_wgs_gdc_realn.bam 86147208736 BAM hg38 9c2855bb-1dc7-4f7d-9718-fe4353cd1759 storage1
C3N-02030.WGS.T.LMD_3L8Y7M.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/f77935dd-966f-4f62-aaaa-909fbed01106/07ab6239-d919-4d50-9be4-842845513886_wgs_gdc_realn.bam 60009864616 BAM hg38 f77935dd-966f-4f62-aaaa-909fbed01106 storage1
C3N-02030.WGS.T.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/25031dfb-de49-4bc5-8937-907f5399c3de/a81443de-b861-4bb8-ab23-501062de441f_wgs_gdc_realn.bam 87668734945 BAM hg38 25031dfb-de49-4bc5-8937-907f5399c3de storage1
C3N-02030.WGS.T.LMD_Y3LV4K.hg38 C3N-02030 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/199d9247-71a4-4efb-94d1-3ce66012b272/0adb5230-01ea-46f3-8f0a-ae7d91d4c4e6_wgs_gdc_realn.bam 75297593539 BAM hg38 199d9247-71a4-4efb-94d1-3ce66012b272 storage1
C3N-02061.WGS.N.hg38 C3N-02061 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/88f6cea8-8738-47a4-b0cf-91ed4803c76d/a3f680a5-4014-4b54-a23a-b952959e9e44_wgs_gdc_realn.bam 113099080074 BAM hg38 88f6cea8-8738-47a4-b0cf-91ed4803c76d storage1
C3N-02061.WGS.T.hg38 C3N-02061 UCEC WGS tumor /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/5ef336de-1301-4710-8422-2f15cfd1b164/70929d2b-ec21-4435-a063-570ec640d8ee_wgs_gdc_realn.bam 89842501130 BAM hg38 5ef336de-1301-4710-8422-2f15cfd1b164 storage1
C3N-02062.WGS.N.hg38 C3N-02062 UCEC WGS blood_normal /storage1/fs1/m.wyczalkowski/Active/Primary/CPTAC3.share/CPTAC3-GDC/GDC_import/data/c76a1995-03d6-446f-a38a-1e77971bdf7d/6897a033-cb98-4570-a39d-a8af68edbc71_wgs_gdc_realn.bam 84606898797 BAM hg38 c76a1995-03d6-446f-a38a-1e77971bdf7d storage1
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