TCGA学习教程2-数据批量预处理与整合

发表于 | 分类于 | | 热度 °C

在TCGA学习教程1中，我们从TCGA上下载了KIRC的RNAseq数据，共包含611个目录，下面我们要在R中将这些目录下的压缩文件移动到同一个文件夹中，并对数据作预处理。

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> setwd("D:/TCGA/kirc/download") #工作目录
> dir.create("all") # 创建文件夹准备移动数据
> i <- list.dirs(recursive = FALSE) # 工作路径下的一级子目录，赋值给i
> length(i)
[1] 612 # 611+1，611是下载目录的个数，1是新建的all目录
> i[1]
[1] "./001ae925-102c-4818-8eb0-c8d2e5726e7c" # i[2]是第一个包含数据的目录
> i[(length(i))]
[1] "./fff32101-4f71-4c09-b65c-bf09e97c5160" # i[(length(i))]是最后一个包含数据的目录
> i
  [1] "./001ae925-102c-4818-8eb0-c8d2e5726e7c" "./0085c623-bcdd-4b71-960c-a42acd0e53e4"
  [3] "./00f072a6-6db0-4dcd-b819-e664f7e827df" "./02b2aa68-61fe-45af-8c2b-0e767df36cda"
  [5] "./03d18e3c-0a38-482a-8ae0-5fa6906cb6f5" "./03fa41cb-b8b9-47ab-88d6-25852567da7b"
  [7] "./040b0c23-c706-41f1-8fa8-195509486588" "./051d3b55-a9f1-4f26-bcff-0dd28044d282"
  [9] "./05360eb2-3e42-49a8-80cc-312b84e6dae5" "./063230bc-0d50-41c1-ae7b-649acdada086"
 [11] "./0650d0c1-0580-45db-9793-0080df1e44d8" "./06645f1d-a5e7-4d15-9dbb-e44db1d58f3c"
 [13] "./06b98f02-9853-4c2f-87fa-1e0a454ef4bc" "./06be8fbd-a447-49fc-b2a4-148a8ccd4438"
 [15] "./06c39d53-76c5-4264-b227-52204d903d72" "./07298ec2-13ba-46de-9972-b9f420a31eea"
 [17] "./0800fbe8-bc48-4b61-bb23-f67aad42851c" "./091a36c4-00bd-48ac-a964-d26c1cb22dbd"
 [19] "./0acaea3b-3157-4e69-ae01-7d7c59047128" "./0af2d5f2-00c8-4ee2-8a79-790ddd1272f1"
 [21] "./0b358532-e510-49b7-a61b-f0b699e7f05e" "./0be2e699-7dc3-4991-a4e1-8d56a54ae6c7"
 [23] "./0c0c7ac6-aa7e-4d5c-bc25-eea6e09cb83e" "./0d189924-862a-4fc1-ae1c-85f13d5bf8ad"
 [25] "./0d59438e-2bcd-4847-9c8b-be41a8980ae3" "./0de11495-6f10-4326-857e-269ec6dac376"
 [27] "./0e636519-c09c-4ca2-87ad-4492712f0b88" "./0ed3a4f4-c9c5-49b2-9c69-5d807f4d469c"
 [29] "./0f030a91-641a-4703-aa8e-d7df5bf9efa0" "./0f5f8c38-2ad0-4acc-9f4e-c1d5ffddc059"
 [31] "./1180f440-44fd-4e90-94a3-c5624662fe0f" "./1232fa43-bfbe-4852-bcc7-584b1d007da6"
 [33] "./123a78ba-f2e8-4f8a-8d5c-96fd01e2d81c" "./123e89e4-a93d-46cb-980e-d1acb1297e54"
 [35] "./129bf087-37a5-4ae7-847b-9e8ed29c489c" "./12b86bf2-36cd-4351-afbd-55547cc90fe8"
 [37] "./12e6deea-2ad5-46f2-a3f9-b7d16a03f5b2" "./13850ee5-7407-4f9b-9a0b-6a30d94028f4"
 [39] "./13ebf468-8820-4784-9e9f-6150ca56656a" "./1408a0b4-5812-4191-a87b-f4cb32849cc4"
 [41] "./1433bdf9-1de5-4879-a4c2-2ee43800c1ba" "./14f53cea-e25d-45b0-b313-b5fe731ece9d"
 [43] "./15f3f82b-e39e-4cb7-b170-e2bbff61c609" "./160f9a11-65b0-44d0-bb02-5bb49a5b95d9"
 [45] "./16a6a641-52a3-4569-8ea1-ea090ad7027c" "./16b5a58b-480c-4561-b311-550398e74c3c"
 [47] "./173720c8-fbce-4c3e-86e4-b84191ed67da" "./17452245-bdfb-4cf0-b112-8c1254e681d4"
 [49] "./177f3a3d-4869-432e-bde2-eaed91187629" "./18816416-edda-401c-b1a9-618cb4ea7986"
 [51] "./1885c1ce-104c-4b61-a444-cd10b47c3665" "./19c998c3-e83a-42dc-889b-bd16393b6adc"
 [53] "./1a90a144-6641-44d8-a4f6-efa32e2eaff9" "./1a978e0c-c25e-41c9-a0a1-96025baad2dc"
 [55] "./1aa1e468-dedd-4023-ad34-627b34bc00ba" "./1aa23877-33fb-421e-8cd3-3086d00989d8"
 [57] "./1af298c0-84b1-4e32-81d0-e627c8dbd8b0" "./1b0bc64a-1fad-450c-9826-901733d1fb0e"
 [59] "./1b2eb786-d430-416f-a3e2-20088874d53a" "./1b7013e1-8acb-4c8a-9012-1b4a8c29fe75"
 [61] "./1b9179b2-ebcc-4a18-932f-09cae1bf8b90" "./1bb3155f-233c-4391-b0ff-f55077cd5084"
 [63] "./1bd99108-25d9-4a68-8ba5-6df0c193b31b" "./1c19e674-4bc9-443b-ae31-228a74eb4836"
 [65] "./1d0b3f02-4703-468b-91f3-8d00d2998c09" "./1e16138f-654c-427c-9ffb-b16b5d8d3fff"
 [67] "./1ed5778a-7929-4645-b6fd-753268a79b37" "./1f5152a5-04aa-4389-8c09-aee3b02d8ff3"
 [69] "./1fbe7f8c-bd58-4462-bd14-107268c693b4" "./20d82764-4c1b-436e-8ec3-18e2f41baf5a"
 [71] "./20f2ddd9-f4be-4515-9f1c-8bbf79882dc8" "./219fa29f-3da2-4ee1-991f-18dcca25184a"
 [73] "./2208f420-20a2-46a1-801a-ff7eb8a42590" "./22245d1e-8376-46e1-8d3c-b5c3961c772e"
 [75] "./23572751-2161-4b78-8b67-08cdcfc597c4" "./23b1679f-ae8a-48fb-b5ca-f7772edf046f"
 [77] "./23b7e501-5a69-42f8-b1be-f4cc960c8b49" "./24200a94-07cc-4639-a9c0-5d3a309439a2"
 [79] "./256908f6-e3c5-4cea-80f1-da17581e58c0" "./2576a7cb-4188-4951-add9-8ff19fee8962"
 [81] "./258f12c4-7ebb-4704-bde0-c00a6794410e" "./259728af-0e54-4e90-ab0e-2d298c46d432"
 [83] "./25d9f4c5-a040-49bc-839a-671a3ef1d89c" "./25e26eb5-ef83-458e-8de5-afdb8dfdb3d4"
 [85] "./261fac60-1fc6-4b63-8504-50661012817d" "./26280006-d638-4f1e-b679-ea511b9a849f"
 [87] "./26315240-b1bd-4a15-8e07-43b6aab822bd" "./265ef764-0299-4452-9995-e50b965edfcf"
 [89] "./2662d132-5eea-4f13-8f92-2820e71536b6" "./2671dda7-926b-4b95-9b0c-5ebe9a40f0c2"
 [91] "./267c4c14-6c85-4ea1-b946-431363971381" "./26ad3537-317f-4297-98ab-5854fb33e766"
 [93] "./26e02424-b82c-453d-9994-3bb2dbcebfae" "./2707fd6a-c885-48b6-a44c-7c9644d08025"
 [95] "./27470e9b-a827-494f-901f-d3c5a54aafa2" "./27510e15-2bea-49d3-9580-17bad477970e"
 [97] "./27cba210-ac94-4bec-a5c8-8ad890497e6c" "./27d3095b-0b1a-4524-8509-5cce95f1f941"
 [99] "./27fa4c19-9ac2-4ed6-a013-f6cea9d6ccd7" "./2874581e-c7b6-459a-b153-bbbe7bcdd198"
[101] "./2875cd96-831a-4860-8293-0035eac51af6" "./28ac8ad7-98d4-4430-a310-c351e5b1c455"
[103] "./28b4e6d0-e3c4-4160-8e3b-ebbc2ff21ba5" "./29598799-b3a6-47c4-b6d0-597348bf6166"
[105] "./2a3861af-a692-4051-b814-5c6bf810b3ce" "./2a4378da-85ae-4dba-9246-104ab18d1be2"
[107] "./2a7eef40-f7c9-4864-94d8-2c65cec448c4" "./2acf0bea-d02b-4649-a6ee-763a9639b966"
[109] "./2b92d5f1-3264-4fe6-8c9d-f6c878f17af6" "./2bc1b30a-eb4a-495b-9c82-30e016edfd31"
[111] "./2cdde47d-4d0f-47ab-8ad1-6bf86e775586" "./2da146cc-b79d-49a8-b721-b69d9d44f9c0"
[113] "./2e71d4d7-bede-49b2-9ed4-4e4d184fa688" "./2ec78c8e-5734-4591-bd93-b4fd8a11a518"
[115] "./2f2d5c8b-d289-46a1-8522-12949be17ae4" "./2ff3f415-bd55-4481-84b2-8ae67dbce5b5"
[117] "./302eede7-3d7c-4718-ac97-9546aef0d2fe" "./313bb1d1-01dc-4d2a-ac0a-50d6d247d27d"
[119] "./319524d3-e354-4407-98e8-f9b41e06df84" "./31afdd90-b09f-429d-9371-16c92c3fa4dd"
[121] "./32333805-0b11-4c0c-9a75-471bfab0bee8" "./325cff86-b9c2-4bbe-bb8a-4005fe90bdff"
[123] "./326e195e-bfb3-4abc-8084-d55a9f5d5a8c" "./32a1ca78-025b-4900-b541-39970cfc1aa7"
[125] "./32fab842-d885-49f8-a7c2-9e52d53b6f2e" "./332c12ca-b218-49e2-84bb-1f413a613686"
[127] "./336fea13-819e-4383-83db-1df064c2605b" "./33d8a71c-7cb4-4968-89c2-4d3b2c1ae97c"
[129] "./33e2fa7e-623f-4912-bdb1-af1828565cc5" "./345af743-aad6-45de-a738-e6def7755b71"
[131] "./35a9c3ab-dc10-4d93-a550-2186dbaa1502" "./36238e70-5b2f-4882-81b7-1ac88e592ad2"
[133] "./369eec9a-1311-468a-b233-4c5f8ce3e12f" "./36f16512-fd32-478d-a9cd-d78569a5a953"
[135] "./36fc0da6-62e9-49de-b403-162df695ef8d" "./373c6e2a-e463-4e59-a21e-37530f537259"
[137] "./376f6843-ad87-4a3f-b76a-78eae76efdec" "./37c88e74-0dab-4736-ac20-3b3025d16873"
[139] "./38126a07-6469-40e2-8833-41d90d3067b1" "./38162fb9-f917-4c5e-8cac-09041a12fa42"
[141] "./39311f9a-b39a-4ffc-aeea-660faebbd7f9" "./398c3a67-8783-4539-a7de-532ab30c4fcb"
[143] "./399bccfe-9797-49fc-a492-10596206c68b" "./399e071a-a64b-49ce-abad-1b7421261471"
[145] "./39b55de6-d4be-451b-9e7d-31da539e67fb" "./39ec7ba4-3a83-41b1-80b4-af4f50b21401"
[147] "./3a4f930e-fe81-40e1-b976-3c60fe74293f" "./3b97e2c7-5c28-45ae-91c2-902dfd3a7c9a"
[149] "./3bea8989-71eb-4654-9dee-bf1679a40e8b" "./3c9f74c8-4364-41a7-b7d1-9d0f8b9c4a84"
[151] "./3cec76c6-1124-4494-8d57-426a32ec908a" "./3fb04b43-2076-418a-9994-8ddc21ada10d"
[153] "./3fd3d1ba-67f4-4380-800b-af1d8f39b40c" "./3fe4c90d-4144-4fe0-8aee-5f2de724b468"
[155] "./4032d925-8658-4f80-be27-7211b1b5854d" "./410e543d-81c9-494a-9d84-60af7b00c2ac"
[157] "./41197e55-30cc-40f4-94d0-930064ac3259" "./41c2e1d8-7fd4-425d-b2e1-d2b659d769a2"
[159] "./42c14f01-2589-428e-b3ee-0ac4cbb2cbe6" "./441b87bc-1c08-4a25-8c3b-a13c6ca80777"
[161] "./44354b17-a9cf-485b-be8c-08717e8911ed" "./449a2d10-07de-4e5f-a0d7-e7f59bc5c435"
[163] "./44d2cbcc-4084-4de2-b2bd-fc43a5e2495c" "./44e6e2f3-284c-4450-b95b-8783fbbee2d5"
[165] "./4635a89c-1635-4406-b196-2fd0610a76bd" "./473e7d1e-1433-4db1-90b6-05456d2dde48"
[167] "./479e7d6e-d148-4650-9e62-a23762e534a5" "./481383ce-b91b-4051-be71-0742f26cb178"
[169] "./48a60ec9-abe8-4c67-907d-eefd97b7a107" "./4922ffa3-33c1-4bd2-bf59-42b7d2694315"
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[447] "./b6771970-3fb2-46bb-8bc7-4cfa8b06bdfe" "./b7de3e99-305c-4d2c-8e79-fd00cf2e53a8"
[449] "./b7fb1af9-c943-4075-82a3-0e75b3b9cfcd" "./b814535c-42a9-4789-a893-f95fcdbf5f8a"
[451] "./b98b6790-40b1-4738-917c-00960f0e2e21" "./b9943784-11f3-4647-b97c-f081a51c9b42"
[453] "./ba6287ac-589d-46f6-ab46-e21e3b1660e6" "./bb361bbc-f7f6-4871-b78f-7df122fa6bdb"
[455] "./bbc901f9-b0c5-4ba2-87cf-e77daa1fbf78" "./bcb77e5f-598a-4a23-a265-895866298013"
[457] "./bd979170-4598-450e-8bc9-e4526a63ed53" "./bda9e809-743f-4ffe-b100-4ad6f0fc9051"
[459] "./bdf82307-9836-4521-ae6c-580a7c56a99a" "./beb6f964-a2ba-44c4-96a1-eb1b1e36be33"
[461] "./bef71bbf-7bae-4a80-b1c4-2d2291e5068c" "./bf5e79ef-8b45-4a64-9cad-47b39b94f05e"
[463] "./bf7f19f6-b4c1-45ac-8ef3-abc0a2a03c97" "./bfc916fe-79e8-4d8b-91e0-e608d8728220"
[465] "./c01ecb8b-8c57-4d44-b109-e03a436c1c0c" "./c0a5ed3c-541f-47dc-b12d-2e7074d190bc"
[467] "./c17227dd-f5bb-4a2c-a9b0-d2753fcd6c30" "./c2205a8c-8b00-47a8-8fc5-ddd2785d60bb"
[469] "./c2354aa8-408d-478e-a7cd-1ec349ebb510" "./c24021f0-9c8d-4c99-9062-3b432ccbd373"
[471] "./c27bc575-a7df-4ebe-9d1b-ebef7e6f727d" "./c28c961d-cb35-4f73-a6ce-91fa87bf2de7"
[473] "./c2d040ee-1b07-489f-84d8-4a15efe37295" "./c3641a4d-1af6-474a-9313-4d1877b69bd4"
[475] "./c3be4c12-acef-4108-9367-39c24a16d107" "./c3feaebc-c8e5-4cbd-967a-8d9772fbfce4"
[477] "./c514b1f6-c81a-48ba-a736-7bfaa85c230b" "./c51ba8e3-6bfe-47da-b1df-cf62f2d640b5"
[479] "./c5a0b557-9f32-4666-bafd-783aaf924890" "./c5c4208e-7f33-4590-9fc4-384dbc49e205"
[481] "./c61cca3f-a115-4ba2-8346-d688d8ed1998" "./c6c536dd-6f85-42a9-b900-ef765ca0a3e7"
[483] "./c6e9f916-f82a-4cf5-8eb9-605a2a664f6f" "./c7155b88-1aab-491f-9546-25d34337b1cb"
[485] "./c74ff9f8-6d54-4729-b235-6c61626405ea" "./c7887b46-0b69-432d-8484-fd463e22bb4a"
[487] "./c7bfa71c-3eac-439a-bf05-9359dd98a2a0" "./c7c8446f-343b-4a5c-9270-b5ecd488ae15"
[489] "./c82042bc-5989-493e-8b68-16ff0284bb0d" "./c82be063-2af6-4b9e-870c-5bdbec0867c4"
[491] "./c8e58d70-8631-4251-bffc-973c01100429" "./c9bcdcf0-6e22-4b0f-95f4-e3b983e51988"
[493] "./ca0cdf20-987d-4e07-a368-bcf34e228c0e" "./ca1e8854-e921-4279-98b2-26cb5b3fa36a"
[495] "./ca315cc9-e8ee-4f7b-b538-5df8d0ed43fa" "./ca5859e6-f801-4483-8d8f-c0a2d2e24fd7"
[497] "./caba3e6a-cf76-433c-91cc-40745517ac82" "./cc573f1c-825e-4045-bc66-73cafabe582d"
[499] "./cea1c87c-eb1b-406c-b939-07fcddf87c73" "./cecf6ba5-110f-4984-a2b4-2c7a68e149c9"
[501] "./ced9da2f-fc23-4e71-b554-068af81ad258" "./cfca006a-7d20-4dcb-9224-426efae5ce1d"
[503] "./cfe5c3a5-9b71-47f3-a066-97d62fe0c381" "./d030c4a3-1fc9-4f53-95d5-6d99792bacf6"
[505] "./d16a7bc5-2017-4975-9240-7e9e52c9b6ed" "./d222e400-bb6f-4a2c-a8ff-629a55fd03b5"
[507] "./d2411897-6f49-4d9d-ac60-e3c29b23fefa" "./d29fed52-e98b-4092-b540-8cc693fb2484"
[509] "./d2ddb984-0541-4cb9-9449-7d013ac77d25" "./d436e00d-2964-493a-a24c-2c24c1b0aee1"
[511] "./d52d01f5-aeb1-49a8-aa99-49b5b76e6c2f" "./d5c19a8b-5bcc-4d60-a387-3e434b44e36f"
[513] "./d69c53c7-b006-4dc9-8765-6c25c137d378" "./d79efc9a-9c80-419e-b43d-de46214ae65c"
[515] "./d79fb325-a654-4966-b3de-56cff950a138" "./d7cc4e9e-cd60-4995-ac43-fff15bbc671d"
[517] "./d7e555a2-32d9-43e8-b441-d1b038f3f70f" "./d88d8436-fa93-4bec-8854-66bdab4d43e3"
[519] "./d90f0c09-dd25-4070-a232-a79351698529" "./d915ef50-4b5e-45d0-a9e4-d0460edc90a0"
[521] "./d926deb0-d7b4-402a-a002-96ef5c7d4d13" "./d94a19cf-7bd8-4b6d-b218-16ff328f1251"
[523] "./d961989e-f09f-4121-a7e2-b8270e906aab" "./d9f5583e-2e6e-4dca-89f3-a8b9db9f829d"
[525] "./da12f45b-d6ab-456b-aeda-28ccee960c80" "./da632429-9f6f-4e1b-be6b-a94c4f044219"
[527] "./da73d873-3e00-4a9d-93b1-0de81c5dcb6e" "./dba49aeb-f2ce-45cc-8f1f-112ae81a5923"
[529] "./dc4f301d-4684-467e-b96a-2ecbcd2dcd5f" "./debc4dbe-818c-4c99-bcab-ef17361ccaf3"
[531] "./dee48a56-edd7-485a-864f-3b8a9078ddb2" "./df694ecc-60ce-4720-9733-cdd9d9012da9"
[533] "./df9fa5cf-2915-43f9-a83e-cc3e53677141" "./e1a0d402-fdd1-44f1-b997-2e9beda51abe"
[535] "./e1ad39eb-e03c-4f97-86e6-967ebc306f00" "./e1ffccc8-45d6-47fc-bcb9-7200ccb7cc17"
[537] "./e29ee40c-a51c-490e-b29e-d0d1c12de8ac" "./e2c4bfbe-924f-41b4-9b1e-e87b3957a110"
[539] "./e38ccf6a-87f1-4d65-b5ab-e65c1884e064" "./e429416f-f4dd-4fd4-8b61-6ad9e3097a51"
[541] "./e453e4de-106a-4aff-80a9-e2154cd55157" "./e46d3060-437a-4e8d-8279-d3fc8efdfd15"
[543] "./e494e331-b48e-4028-b3d0-52590010390b" "./e5571547-2d4c-4f50-b6af-efc2dd0c944b"
[545] "./e56c76e7-b3ba-4613-9e9a-ad166bb8e0f1" "./e61283f7-e3cd-4cb9-8fca-bb635ce4b79e"
[547] "./e6327404-7f2a-4a69-a923-13bee9cc7eaa" "./e63b0745-a6ac-4d44-9f3a-5df2ffb90f06"
[549] "./e6668726-dbc8-4c2e-b6c2-3bdeec437fbf" "./e716f724-c25b-46f3-91c4-f7dbf8c94c93"
[551] "./e781bdc6-25da-497b-95d1-3527cf3f0d72" "./e78ce5d6-10fa-4e0f-983d-2d58f4e19799"
[553] "./e829dfb2-2113-4471-b4cc-72a0e77bcd89" "./e8874cc7-7dbd-41d4-96b9-8738d023a08a"
[555] "./e8b5d26c-c1fb-443e-b74c-6291867faae3" "./e9387ac3-1668-45ae-9536-5fd16d362a9e"
[557] "./e9c624cb-7810-44c5-8a09-6125aecada80" "./ea4e8e64-0bf9-44b4-8b53-d263908bcbad"
[559] "./ea7ab855-297c-4ea0-81cd-d46a1cf90135" "./eaafd85b-44d4-41d2-a898-c882de2ccdd2"
[561] "./eac64872-0719-4993-9dd5-24cd6223e378" "./eada4890-4e51-49d5-9490-ea78d632f785"
[563] "./eb53af8c-76b7-47a6-919a-0b132a3ac052" "./eba55044-7b62-4e0c-b4cc-4718d0df1a26"
[565] "./ebcf77e9-28c9-48d2-9c51-3b38a40f3b78" "./ec3e32e6-2311-4467-be96-9458fed11b55"
[567] "./ed856617-ad10-4644-80f6-5a30196a3ba6" "./edeeea64-287f-43d8-a3e2-64d3d16f3168"
[569] "./ee9fdb10-0ec9-495f-a984-f540245ca385" "./eeb2036b-c085-44b0-847c-da69f83abdc2"
[571] "./eeb3bb59-bf09-432e-b44b-f060fcfbfc5c" "./eeda0b68-91f8-42b8-8a8a-c8c441e1b86d"
[573] "./ef012c4a-aa0e-4c56-a090-cce9f284fd72" "./efb12e5c-ee05-4e74-961f-4b85f0dbcd56"
[575] "./efd79cb4-d6de-45ae-9d81-67065c17ae65" "./eff6ad73-e101-4d08-8027-34f360b218a3"
[577] "./effc0424-56d5-4536-8d2e-a59f1aa35f5d" "./f1af2d03-7384-4698-8674-5b63f0339e7b"
[579] "./f2da97c5-88c6-4535-94bb-eb8a48f4b9ee" "./f3598f6a-9302-425b-835d-26534893b57f"
[581] "./f49604b6-3f1e-4773-bc2f-f226f6f14d0c" "./f55b8f9d-160d-452d-9c30-e4628e6e3d6b"
[583] "./f58791fe-b12b-420e-8c74-483291e613bb" "./f5a44e09-4038-4ff2-88f9-8443ead7a103"
[585] "./f6cf951d-d7b1-4e57-b852-c5b81acb87b1" "./f6e8a5a8-730a-4365-9842-758c68f57117"
[587] "./f73ef8af-971b-48ef-b767-61883c985f0f" "./f76387d6-b75c-48ac-afaf-871b070cd302"
[589] "./f7866626-5fdb-4bb2-a008-61f8848cb733" "./f7c3607b-458a-413b-aa57-f3c6785e1f43"
[591] "./f80eaea1-c03a-44de-bc81-b346b19e2ae7" "./f82e58a1-05b3-46e3-b5a8-2565297fa762"
[593] "./f89f759b-9b3c-4523-a465-4f705454b092" "./f8e47063-46fe-41fc-a8ca-f6851070f4c7"
[595] "./f9536c2f-fdfa-4acf-b2b0-9f264dfade89" "./f9d81e60-5988-444b-b6a7-dab25c8cf036"
[597] "./f9ef3842-a234-48dd-b089-5c5eca8534ae" "./fa16e26a-a1ff-4521-a976-9c87ae74776d"
[599] "./fb7fd72b-8328-425d-8724-96fc7358cb69" "./fba38772-6957-4732-bd74-193382cf2142"
[601] "./fbac7e1d-8a48-4586-a434-36e8d064ff5d" "./fc391121-1f79-46f8-aa24-38f8eb42704c"
[603] "./fd1cfaa3-684a-41b1-9344-9a0f3687fde2" "./fd591096-1dd5-41a4-a78d-07a999aa27fb"
[605] "./fd78f87b-caac-4276-b321-56f673cb9016" "./fd8f2933-ce8c-4b3b-8b96-be37f5fe4ccc"
[607] "./fd9ee0b2-64a1-4b0d-bdeb-16b06b24ea89" "./feaad881-32a2-4fa6-a87b-a983379ae480"
[609] "./fed4ded3-8f67-47a9-948d-7c4e3b4ce8f8" "./ff50ea19-a83c-4742-99c9-1dc9858ca9aa"
[611] "./ff6560a6-e2b2-4888-9555-e73a4de6d098" "./fff32101-4f71-4c09-b65c-bf09e97c5160"

> for(n in i){
  x.path=paste(n,list.files(n),sep='/') # 列出一级子目录下的文件路径
  file.copy(x.path,'./all',recursive=F) # 将上面列出的文件拷贝到all目录下
} 

# 进入all目录，下面有611个*.htseq.counts.gz文件，
0048d446-301b-4d04-97d2-1348b6889692.htseq.counts.gz  776104e1-6a5b-4fda-8943-23edd5bcb462.htseq.counts.gz
0062bf7b-fcfd-4448-be8b-8c6b1bc643a6.htseq.counts.gz  777d1602-66be-4673-b69d-d651abf7bb35.htseq.counts.gz
00a9180b-4707-411f-9732-61fc49bfeb48.htseq.counts.gz  789c658e-b98a-4e1f-b808-5579dee94abe.htseq.counts.gz
00c12b3c-61c9-4d02-bd7e-2067f9a5f5c0.htseq.counts.gz  78e7d9ea-de99-488a-a87e-c7ff3e3bd8cf.htseq.counts.gz
011ee3e1-37bd-47c1-9092-a24dffd3d5f5.htseq.counts.gz  78fd362c-5ca6-4190-bdc2-8c695b2ed304.htseq.counts.gz
015b7fde-e571-4f7d-9574-eacfa8107a4c.htseq.counts.gz  7939e5e9-8920-4db9-9ab1-a34432830f52.htseq.counts.gz
01ae4201-f15c-4790-a7ea-41290808c5fa.htseq.counts.gz  7951757a-ae69-49be-a6d4-fd0b123c7665.htseq.counts.gz
020a0264-e1d5-4957-9abf-df6983845b8a.htseq.counts.gz  7a43da66-e219-4bc3-bddb-ef014247039f.htseq.counts.gz
023ce468-15ef-4077-af4d-4a723d133132.htseq.counts.gz  7a790ece-2c1a-4895-a475-9fabbc0622a3.htseq.counts.gz
02b3ab24-8d8e-40b4-b0a5-d69aa69e0a6f.htseq.counts.gz  7ac46b6d-5042-4aa9-946d-b75a13d3747f.htseq.counts.gz
030a2cdd-9b0c-486f-935d-6049f41a85e6.htseq.counts.gz  7c9774cf-1a6b-4c25-a280-8b632afdf8c5.htseq.counts.gz
03bab812-d67c-4dae-93e0-55346525fc99.htseq.counts.gz  7db35b39-8d3e-4f93-8450-7e494ba9e0f8.htseq.counts.gz
03fe25f9-ec83-49d0-9f50-e113b6678fdc.htseq.counts.gz  7dd92b6c-ed0f-4f93-8a03-0fb8eb318d83.htseq.counts.gz
04e92e8a-7016-453b-addb-a3cc7e88d867.htseq.counts.gz  7e0c2d63-6b93-4164-b9c6-72ad669eb0c7.htseq.counts.gz
04ebd1b2-5cc6-448d-a351-58cc73a8d094.htseq.counts.gz  7ebd35ca-8fd1-4f22-a38d-122537b65bc2.htseq.counts.gz
063e88ae-7e21-4504-9c1e-45d7d371b276.htseq.counts.gz  7f6e7f9e-1ec3-4109-b4fd-1786aad9942f.htseq.counts.gz
064910fa-3648-4324-b958-47a3b89fe4b5.htseq.counts.gz  7f8961db-237b-44d5-b9f8-eb3980896b98.htseq.counts.gz
06ef2a8d-3ab3-4e88-b72c-a4317d5e8a52.htseq.counts.gz  801c2c60-5dc2-43f7-949f-18b5a35a4ca3.htseq.counts.gz
07ef65b6-3ad2-4e51-809f-738283978aba.htseq.counts.gz  80b47148-4783-43bb-9f61-570cb5f0202a.htseq.counts.gz
08c5dec2-1521-4c5b-90fc-1d17306a6da0.htseq.counts.gz  810d7c7d-1e04-4eae-8ae1-049dc111e255.htseq.counts.gz
08e381b6-7100-4628-8ae7-ecdf42827902.htseq.counts.gz  8170404a-1f5b-49b4-9d68-a196c57da6b2.htseq.counts.gz
091dc352-d8e6-484e-989b-4bc571051130.htseq.counts.gz  8236e9a3-ea00-4a0f-923e-40d55c300a83.htseq.counts.gz
09246213-2ca8-461d-8cb9-2de1da038b7f.htseq.counts.gz  8397b99f-3ab3-4e85-a6d2-4377689aface.htseq.counts.gz
0a8119d4-31b0-4c02-8fc8-318077456790.htseq.counts.gz  84400ad5-cd37-4a94-a143-5c470599d1ce.htseq.counts.gz
0ade05fe-5f98-477d-b7fa-c56ea93247cf.htseq.counts.gz  844b8466-6848-4dd7-b620-1a84103f63c8.htseq.counts.gz
0ae0a2cb-0845-459e-b673-98ee0dea3968.htseq.counts.gz  84d835ed-9e38-4fb0-8596-df882698107d.htseq.counts.gz
0af9ed7c-6508-4988-a2d2-66806cf14c95.htseq.counts.gz  862ee0a5-794a-4bad-974e-84b341fa7d50.htseq.counts.gz
0afa874c-af86-47d8-8757-0679af6804a9.htseq.counts.gz  875c4c80-bbe2-4ab7-b276-adc8ecaa987c.htseq.counts.gz
0b2cf05d-1d12-4fcf-898f-3e9e90b97dda.htseq.counts.gz  87750eaf-0823-4f5c-9bf7-577471f4ca68.htseq.counts.gz
0b490510-ec4d-4e10-ad98-c378e9332a6d.htseq.counts.gz  8789d75c-8207-44bf-a34e-985440406b34.htseq.counts.gz
0ca1e770-a584-4090-95fa-9c0a3ad4bc16.htseq.counts.gz  87ae6f80-ff00-4b44-bcfe-ef3a3c1582cb.htseq.counts.gz
0cbf5cd6-30b6-4121-9f51-e85229b54fe5.htseq.counts.gz  884aa7fa-58c7-4ec1-bb3a-5fd7141dff0a.htseq.counts.gz
0e269501-0237-4891-aa6b-5f5f0c3cbafb.htseq.counts.gz  890031a1-4dae-4f7a-ad43-beacc11f4d90.htseq.counts.gz
0e303e50-9b5f-4ac5-9428-cc9979667d48.htseq.counts.gz  891d5512-0e8d-4dac-9f76-71aeae3937a6.htseq.counts.gz
0e88c1e6-6c1a-40e4-865e-b601621d33d1.htseq.counts.gz  891f9d70-e716-4fc9-b53e-f120da74eea3.htseq.counts.gz
0fb0526a-42ca-48b8-bf58-f9b39cda341a.htseq.counts.gz  89528cea-b21b-4ea8-a271-3d3f3ff142c9.htseq.counts.gz
0fef447c-5f07-4299-b602-2b6b8450c6e6.htseq.counts.gz  8a4021d0-bdee-4287-9266-d33e8d0a7407.htseq.counts.gz
1006434c-1c1b-47a3-bbf0-8d331d8e1722.htseq.counts.gz  8a5ed889-bb3d-47a2-bd2a-0a1d139a3809.htseq.counts.gz
10a93ff8-e2cd-4f1d-acb8-ae4ccd5fecdb.htseq.counts.gz  8accded2-8915-4eda-9ee4-c6730c2474de.htseq.counts.gz
10d26b59-35d5-4925-9f28-6d54125ad67a.htseq.counts.gz  8bc4505b-bcb8-470a-bc52-2b8f6a4cb4ae.htseq.counts.gz
10ebec51-fa4a-4d65-9c5f-07eb6e399e8f.htseq.counts.gz  8c063b2e-61f1-40ef-9ec1-5146d1c1855c.htseq.counts.gz
10f64bfb-e4ca-4426-b936-36e4c1c2cc2a.htseq.counts.gz  8c4af45c-5747-4cf1-942d-0a7352b369f3.htseq.counts.gz
11ad89e5-bfa7-42bc-8dd4-13a5f745df1a.htseq.counts.gz  8c811805-abba-4080-a703-8d6bef165520.htseq.counts.gz
130e22b9-5b91-437a-88be-aefaced5bb5e.htseq.counts.gz  8cb43c50-4ce9-4707-9dfa-cc5ed66a6b61.htseq.counts.gz
13352bd8-ba40-4ea5-a23e-9aa538291ba8.htseq.counts.gz  8d2f4be9-4885-4a75-991e-286a2f9223c2.htseq.counts.gz
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6e264598-c25a-4d37-aa61-e3042c2265be.htseq.counts.gz  f71ca4cb-1677-41cd-aec1-cd2702fb840e.htseq.counts.gz
6ed3d60c-b0d5-4122-a8fb-712c6d2cf80a.htseq.counts.gz  f771854c-24cb-499a-b13c-b2fee71bcb39.htseq.counts.gz
6ede5224-9a84-4ec5-9db2-99fbaf3419b1.htseq.counts.gz  f78e0f6e-6a64-4725-bab0-9b13ad036332.htseq.counts.gz
6f141f5b-bf1e-4b4b-8a9e-b4edb0d5cbd9.htseq.counts.gz  f7b97473-d095-419b-98ca-f9212f037893.htseq.counts.gz
6f899334-8741-4d1d-a8e2-3bf17a25c968.htseq.counts.gz  f8089187-0d81-4e94-92ae-3f0178ce1790.htseq.counts.gz
6fd0c5f2-a086-4fa6-900a-909cf67ef8be.htseq.counts.gz  f83b0459-e485-4988-bdce-5a217b454d8b.htseq.counts.gz
6fd37782-98d7-4704-b046-b18574b65be4.htseq.counts.gz  f9b34a21-993b-4eb7-a383-5cd41cd56ab9.htseq.counts.gz
6fe662c3-c2c3-4c70-9f77-5061cea46203.htseq.counts.gz  f9e98164-b7e5-4d58-a4ba-d6947d832088.htseq.counts.gz
71a24f55-17a7-4396-91fa-e6c7e03df518.htseq.counts.gz  fabbefc8-53b5-42e4-9a54-39280d18f419.htseq.counts.gz
7223f19a-017e-465b-b81b-bed54252c6b0.htseq.counts.gz  faeef296-5731-4095-b617-18a19e419b3f.htseq.counts.gz
725c494c-5cc8-4825-a992-b98d61f57046.htseq.counts.gz  fb7bdba2-fc02-4d20-804c-704310642bdc.htseq.counts.gz
73461d68-f3c8-4a5f-86e1-44f6f4218ba2.htseq.counts.gz  fc5bd55f-cdb1-4c96-a91a-513b43e6a99a.htseq.counts.gz
73516997-7254-47d2-84b5-6d81bc84c077.htseq.counts.gz  fcd37843-e471-4fc3-a4fd-da8d161d36e4.htseq.counts.gz
7386bdff-7f78-46b5-afd3-d75a19f1a0ce.htseq.counts.gz  fddf0083-59bd-4352-8e3d-7e5715f6d5b0.htseq.counts.gz
73e6cc52-f4fe-4168-9dd0-d6d28879cc95.htseq.counts.gz  fde994b4-f247-4bc9-81f2-dd9d39008c31.htseq.counts.gz
74820fcd-2e21-4de7-aabf-bdea4842046a.htseq.counts.gz  fe1e1f62-8e18-4400-9b25-2c439fa25b6f.htseq.counts.gz
74c84a22-7165-41f7-a38f-ed2db790ca2f.htseq.counts.gz  fe3596cb-7fed-41b9-ae30-caebcf717e6e.htseq.counts.gz
7563ddfe-268f-4df2-a502-dc2284d8a02b.htseq.counts.gz  ff7a8aa0-f671-441d-adfb-e1139614a47a.htseq.counts.gz
764dfff6-4ae1-4dcf-a505-867b6f6845d2.htseq.counts.gz  ff975b13-1717-4c41-a653-3a57d702cb2f.htseq.counts.gz
769d968d-bf8e-4bb7-93ec-47a131d7f2d5.htseq.counts.gz  ffcebcae-607d-4a4c-bb0e-6eda3ec5ac25.htseq.counts.gz
76b4e454-8b75-449b-98cc-3c41c5e063a3.htseq.counts.gz

# 下面将这些文件解压，在命令行中输入：
gzip -d *.gz
# 解压完成后，看一下这611个文件，
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0062bf7b-fcfd-4448-be8b-8c6b1bc643a6.htseq.counts  777d1602-66be-4673-b69d-d651abf7bb35.htseq.counts
00a9180b-4707-411f-9732-61fc49bfeb48.htseq.counts  789c658e-b98a-4e1f-b808-5579dee94abe.htseq.counts
00c12b3c-61c9-4d02-bd7e-2067f9a5f5c0.htseq.counts  78e7d9ea-de99-488a-a87e-c7ff3e3bd8cf.htseq.counts
011ee3e1-37bd-47c1-9092-a24dffd3d5f5.htseq.counts  78fd362c-5ca6-4190-bdc2-8c695b2ed304.htseq.counts
015b7fde-e571-4f7d-9574-eacfa8107a4c.htseq.counts  7939e5e9-8920-4db9-9ab1-a34432830f52.htseq.counts
01ae4201-f15c-4790-a7ea-41290808c5fa.htseq.counts  7951757a-ae69-49be-a6d4-fd0b123c7665.htseq.counts
020a0264-e1d5-4957-9abf-df6983845b8a.htseq.counts  7a43da66-e219-4bc3-bddb-ef014247039f.htseq.counts
023ce468-15ef-4077-af4d-4a723d133132.htseq.counts  7a790ece-2c1a-4895-a475-9fabbc0622a3.htseq.counts
02b3ab24-8d8e-40b4-b0a5-d69aa69e0a6f.htseq.counts  7ac46b6d-5042-4aa9-946d-b75a13d3747f.htseq.counts
030a2cdd-9b0c-486f-935d-6049f41a85e6.htseq.counts  7c9774cf-1a6b-4c25-a280-8b632afdf8c5.htseq.counts
03bab812-d67c-4dae-93e0-55346525fc99.htseq.counts  7db35b39-8d3e-4f93-8450-7e494ba9e0f8.htseq.counts
03fe25f9-ec83-49d0-9f50-e113b6678fdc.htseq.counts  7dd92b6c-ed0f-4f93-8a03-0fb8eb318d83.htseq.counts
04e92e8a-7016-453b-addb-a3cc7e88d867.htseq.counts  7e0c2d63-6b93-4164-b9c6-72ad669eb0c7.htseq.counts
04ebd1b2-5cc6-448d-a351-58cc73a8d094.htseq.counts  7ebd35ca-8fd1-4f22-a38d-122537b65bc2.htseq.counts
063e88ae-7e21-4504-9c1e-45d7d371b276.htseq.counts  7f6e7f9e-1ec3-4109-b4fd-1786aad9942f.htseq.counts
064910fa-3648-4324-b958-47a3b89fe4b5.htseq.counts  7f8961db-237b-44d5-b9f8-eb3980896b98.htseq.counts
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07ef65b6-3ad2-4e51-809f-738283978aba.htseq.counts  80b47148-4783-43bb-9f61-570cb5f0202a.htseq.counts
08c5dec2-1521-4c5b-90fc-1d17306a6da0.htseq.counts  810d7c7d-1e04-4eae-8ae1-049dc111e255.htseq.counts
08e381b6-7100-4628-8ae7-ecdf42827902.htseq.counts  8170404a-1f5b-49b4-9d68-a196c57da6b2.htseq.counts
091dc352-d8e6-484e-989b-4bc571051130.htseq.counts  8236e9a3-ea00-4a0f-923e-40d55c300a83.htseq.counts
09246213-2ca8-461d-8cb9-2de1da038b7f.htseq.counts  8397b99f-3ab3-4e85-a6d2-4377689aface.htseq.counts
0a8119d4-31b0-4c02-8fc8-318077456790.htseq.counts  84400ad5-cd37-4a94-a143-5c470599d1ce.htseq.counts
0ade05fe-5f98-477d-b7fa-c56ea93247cf.htseq.counts  844b8466-6848-4dd7-b620-1a84103f63c8.htseq.counts
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0afa874c-af86-47d8-8757-0679af6804a9.htseq.counts  875c4c80-bbe2-4ab7-b276-adc8ecaa987c.htseq.counts
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0ca1e770-a584-4090-95fa-9c0a3ad4bc16.htseq.counts  87ae6f80-ff00-4b44-bcfe-ef3a3c1582cb.htseq.counts
0cbf5cd6-30b6-4121-9f51-e85229b54fe5.htseq.counts  884aa7fa-58c7-4ec1-bb3a-5fd7141dff0a.htseq.counts
0e269501-0237-4891-aa6b-5f5f0c3cbafb.htseq.counts  890031a1-4dae-4f7a-ad43-beacc11f4d90.htseq.counts
0e303e50-9b5f-4ac5-9428-cc9979667d48.htseq.counts  891d5512-0e8d-4dac-9f76-71aeae3937a6.htseq.counts
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10f64bfb-e4ca-4426-b936-36e4c1c2cc2a.htseq.counts  8c4af45c-5747-4cf1-942d-0a7352b369f3.htseq.counts
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13352bd8-ba40-4ea5-a23e-9aa538291ba8.htseq.counts  8d2f4be9-4885-4a75-991e-286a2f9223c2.htseq.counts
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5a715f75-afcd-4255-bbdb-9eaf756a5944.htseq.counts  de01576d-54fd-453b-8e13-735d8936b171.htseq.counts
5a8f462d-a749-4542-bf02-f1350fb73599.htseq.counts  de3d2ca0-d59f-46b3-9b15-fad972cfa86e.htseq.counts
5aebac9e-80ba-48bb-aedf-752196a1861a.htseq.counts  df0b7118-2a68-420e-a1dd-236e05bc8fe8.htseq.counts
5b28b53d-0d5e-4359-be3d-23bcb185fc00.htseq.counts  df1d818d-1204-434a-8597-9cc864d5cc36.htseq.counts
5c389a62-c076-421d-9b55-03a6a44a7f32.htseq.counts  df573c90-44cf-4409-b92f-f6c8aaf01737.htseq.counts
5c9f1a05-1dc7-4e83-8dc2-3e5071796c07.htseq.counts  df6c9ff4-db5f-42c9-a98e-91d2f4f14ee6.htseq.counts
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5dc059dd-6aa0-4d5b-b447-b5be0a9021ad.htseq.counts  e1c82878-ac01-45bd-83b0-4bc606039670.htseq.counts
5dddcbc8-e340-4c24-96eb-6fa7ff9d757a.htseq.counts  e23540e1-f329-4908-a42e-269dd9a87947.htseq.counts
5e34aa02-ef95-47e8-8dc1-7fdbbb9c883c.htseq.counts  e26db93d-c41d-4048-9cab-196ec70c5676.htseq.counts
5e879f5e-3253-48fb-906f-0c36c3abe5f0.htseq.counts  e28dfd98-3524-4910-8a3d-76cdd57987cf.htseq.counts
5ed6a576-0353-4e3e-9df8-a1a177e4672f.htseq.counts  e3819f03-64b9-4999-acd7-27af18dade35.htseq.counts
601b2c2f-f51c-4055-90aa-53fc6380fb67.htseq.counts  e3f9e542-aeb1-48f7-ad1d-929262441454.htseq.counts
60547e35-d42f-44bd-a9e8-21d57da93ee8.htseq.counts  e4177e00-8ca5-4ee0-92e2-f358e7037c6c.htseq.counts
6073b31e-7ce7-423e-a9b2-a85e3e9bc62e.htseq.counts  e4b1ed66-ee93-4b3f-922f-f386412247ec.htseq.counts
608afa9d-7bfd-44d3-9d73-1b027c185518.htseq.counts  e50711df-fe6b-480f-97c0-e150cb5d3a5b.htseq.counts
60ab519a-f3c5-422d-9c2c-6876c2cd9687.htseq.counts  e52ea781-07b0-408d-92c0-c87f5725159d.htseq.counts
61162647-173a-458b-a387-967a2fd77630.htseq.counts  e68b0db1-da01-475f-aa4e-6f7f87bbc135.htseq.counts
61164db7-6b71-4a35-a799-8abcfb5ce4b0.htseq.counts  e69a2070-7766-4e4a-89f5-5728e2c9590f.htseq.counts
6134c694-922d-4559-8f55-e03cc58d66dc.htseq.counts  e7f07f98-8dbf-4884-8d45-318671c15c98.htseq.counts
61c7c0b0-d730-4d67-b1b7-c267124d4e1b.htseq.counts  e85334ba-9c09-4725-953d-8b149837ecd9.htseq.counts
621e2d96-fac9-42d3-9357-a7733a494cb3.htseq.counts  e8bb4231-35af-462f-accf-a07a1aa9d5a6.htseq.counts
62be7dc8-d879-4626-8168-25ccccf341f5.htseq.counts  e9aa9cb2-b87f-4d1f-8627-11a1c1d900c7.htseq.counts
631a4c93-c41d-4ca3-84c7-6f6ad226397a.htseq.counts  e9d0a954-7b2d-42c1-a2e1-799a289cc5af.htseq.counts
63404d01-9685-4a55-9319-202e5f5abf79.htseq.counts  ea52b9de-451a-480f-8e1a-ac520dcfdeff.htseq.counts
63554af4-f56a-49aa-9b10-710ed85ffa13.htseq.counts  eb70ccf2-f854-4d99-92a3-f02ba2b3c770.htseq.counts
640ccf3e-487f-49ca-8df6-67e10d852c9e.htseq.counts  ec240723-a6d1-484c-9103-92a709dd86f1.htseq.counts
6528258a-b7eb-4919-8056-225229e1efa5.htseq.counts  ec2e0f42-85e7-48be-ba3c-1afcee0e7e1b.htseq.counts
65393588-3484-4942-80d5-fb3a43cbc543.htseq.counts  ecbab673-6313-4396-86aa-b06c67513c3b.htseq.counts
6641ecad-6707-4f4d-ba99-d28b3817bd98.htseq.counts  ecc2be0d-e700-4598-9e83-44e0b1a12e01.htseq.counts
666b1386-0778-4b3c-a736-dccdc041c80f.htseq.counts  ed167176-8e4c-464e-b18e-ce6f1af4428a.htseq.counts
66777578-091c-48f6-a0af-81353b58304e.htseq.counts  ee63ce5d-eeb2-4249-b1d5-2d0b677f77e6.htseq.counts
66827b45-d9f9-419e-b4d7-15504dd24b61.htseq.counts  ee688178-c5d2-445d-a4ce-69a17640e43d.htseq.counts
675bba8c-4d4e-4e8c-b9bb-bcdc13b606e4.htseq.counts  ef5f4ebe-6b9e-4cc7-985c-e54a286a1f06.htseq.counts
677529b6-20ca-4cf9-8c71-fb7bebedbd2f.htseq.counts  ef6b65f8-e67d-4584-9042-8ae5dbdc845a.htseq.counts
677bb05d-81de-4202-a17b-bc39fb1bfb5d.htseq.counts  ef700f61-d8b0-43d0-92d1-feec949adc72.htseq.counts
677fb228-6830-4402-9eda-c4a0e975c189.htseq.counts  eff473b1-657a-4004-bbf8-c48f948e4e7d.htseq.counts
679e7bab-b24d-415e-a341-da3955e8d47a.htseq.counts  f00661fe-0081-435b-afea-27e1f1b39f33.htseq.counts
67a59704-20de-482b-b65d-57b7e0160535.htseq.counts  f00b69a3-c3d2-4499-b337-abbce3e48f9b.htseq.counts
67de4131-2f71-415f-bac1-33bc14f6438e.htseq.counts  f0532052-b496-4435-abc4-93e23c6a68a5.htseq.counts
68e11add-9274-45d8-a789-1f475e781cd2.htseq.counts  f091a9a1-1645-4a21-b5a2-2f7cae2bdbfe.htseq.counts
68ef4372-517a-443f-91fe-668feb24beee.htseq.counts  f0ce3674-e566-474f-8b8e-96c467e3d7f5.htseq.counts
692302e6-386a-43ff-8792-cb84a07896ce.htseq.counts  f0dd3f84-52af-4d84-b911-c12ce87070a5.htseq.counts
6993764a-2359-4e76-a325-b040e97648d3.htseq.counts  f1af54f4-3006-4136-b0db-aec16e2075ec.htseq.counts
6a058f09-eac6-40d3-a24f-da1cb0371a2b.htseq.counts  f25e85e5-e84e-4b42-bcf0-d493d8bffba4.htseq.counts
6a0f01a5-152a-494e-aef3-45e58c875a64.htseq.counts  f29a555a-3fb8-47a0-ac54-01811b6ad192.htseq.counts
6a97d5c5-4178-4ced-b279-a2d5044f1fdb.htseq.counts  f2d9774f-f42b-4c02-9dc2-0d91a577d0f4.htseq.counts
6aa7ae56-0370-41a9-9286-d4795e06cf5a.htseq.counts  f3876e31-2267-458d-826f-769bcfb34e56.htseq.counts
6b8fbd86-ffe4-463b-bd1e-5fe3249f9dc9.htseq.counts  f3931125-95ce-4c67-be63-edc11068cffe.htseq.counts
6bfb01db-5e92-4fad-9b21-39e1e911716b.htseq.counts  f426d6b8-5010-471c-aa9c-253269f6bc03.htseq.counts
6c2a30ae-9435-4d9c-99dd-59d8d77f3920.htseq.counts  f577a186-ffc6-402d-9525-0aca8eee4de4.htseq.counts
6c4b3467-bf5a-4241-a580-44eea16df109.htseq.counts  f59733cc-e2d4-497c-84a0-5ab4fdc47a4e.htseq.counts
6d221ee7-2444-464e-9782-e83df2e203fa.htseq.counts  f6178fdc-41f7-458b-a905-4ea298e6b098.htseq.counts
6e2123ba-f414-492b-b3ea-76cdb8b49da7.htseq.counts  f66dd895-d78c-4b35-8583-1a2b8464fde2.htseq.counts
6e2447ba-25fb-4c53-bf2f-4ee1e3642da2.htseq.counts  f6dcf5aa-b9d3-4959-8dc9-ad67dbc3c9d0.htseq.counts
6e264598-c25a-4d37-aa61-e3042c2265be.htseq.counts  f71ca4cb-1677-41cd-aec1-cd2702fb840e.htseq.counts
6ed3d60c-b0d5-4122-a8fb-712c6d2cf80a.htseq.counts  f771854c-24cb-499a-b13c-b2fee71bcb39.htseq.counts
6ede5224-9a84-4ec5-9db2-99fbaf3419b1.htseq.counts  f78e0f6e-6a64-4725-bab0-9b13ad036332.htseq.counts
6f141f5b-bf1e-4b4b-8a9e-b4edb0d5cbd9.htseq.counts  f7b97473-d095-419b-98ca-f9212f037893.htseq.counts
6f899334-8741-4d1d-a8e2-3bf17a25c968.htseq.counts  f8089187-0d81-4e94-92ae-3f0178ce1790.htseq.counts
6fd0c5f2-a086-4fa6-900a-909cf67ef8be.htseq.counts  f83b0459-e485-4988-bdce-5a217b454d8b.htseq.counts
6fd37782-98d7-4704-b046-b18574b65be4.htseq.counts  f9b34a21-993b-4eb7-a383-5cd41cd56ab9.htseq.counts
6fe662c3-c2c3-4c70-9f77-5061cea46203.htseq.counts  f9e98164-b7e5-4d58-a4ba-d6947d832088.htseq.counts
71a24f55-17a7-4396-91fa-e6c7e03df518.htseq.counts  fabbefc8-53b5-42e4-9a54-39280d18f419.htseq.counts
7223f19a-017e-465b-b81b-bed54252c6b0.htseq.counts  faeef296-5731-4095-b617-18a19e419b3f.htseq.counts
725c494c-5cc8-4825-a992-b98d61f57046.htseq.counts  fb7bdba2-fc02-4d20-804c-704310642bdc.htseq.counts
73461d68-f3c8-4a5f-86e1-44f6f4218ba2.htseq.counts  fc5bd55f-cdb1-4c96-a91a-513b43e6a99a.htseq.counts
73516997-7254-47d2-84b5-6d81bc84c077.htseq.counts  fcd37843-e471-4fc3-a4fd-da8d161d36e4.htseq.counts
7386bdff-7f78-46b5-afd3-d75a19f1a0ce.htseq.counts  fddf0083-59bd-4352-8e3d-7e5715f6d5b0.htseq.counts
73e6cc52-f4fe-4168-9dd0-d6d28879cc95.htseq.counts  fde994b4-f247-4bc9-81f2-dd9d39008c31.htseq.counts
74820fcd-2e21-4de7-aabf-bdea4842046a.htseq.counts  fe1e1f62-8e18-4400-9b25-2c439fa25b6f.htseq.counts
74c84a22-7165-41f7-a38f-ed2db790ca2f.htseq.counts  fe3596cb-7fed-41b9-ae30-caebcf717e6e.htseq.counts
7563ddfe-268f-4df2-a502-dc2284d8a02b.htseq.counts  ff7a8aa0-f671-441d-adfb-e1139614a47a.htseq.counts
764dfff6-4ae1-4dcf-a505-867b6f6845d2.htseq.counts  ff975b13-1717-4c41-a653-3a57d702cb2f.htseq.counts
769d968d-bf8e-4bb7-93ec-47a131d7f2d5.htseq.counts  ffcebcae-607d-4a4c-bb0e-6eda3ec5ac25.htseq.counts
76b4e454-8b75-449b-98cc-3c41c5e063a3.htseq.counts

至此，批量移动文件就完成了，下面，将要提取这611个counts files中的数据。

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> setwd("D:/TCGA/kirc/download/all") # 更改工作目录
> x_merge=NULL # 定义一个空变量
> i <- list.files()
> length(i)
[1] 611 # 共611个文件
> i[1]
[1] "0048d446-301b-4d04-97d2-1348b6889692.htseq.counts"
> for(n in i){
  x=read.delim(n,col.names = c("ID",substr(n,1,9))) # 两列，第一列是ID，第二列是文件名的前9个字符
  if(is.null(x_merge)){
    x_merge=x
  }
  else{x_merge=merge(x_merge,x,by="ID")}
} 
# 上面的操作完成后，生成的x_merge就包含所有611个文件中的表达数据，类型是data.frame

> class(x_merge)
[1] "data.frame"
> dim(x_merge) 
[1] 60487   612 # 60487行，612列（611+ID）
> row.names(x_merge) <- x_merge$ID  # 将行名用ID代替
> head(x_merge)[1:3]
                                           ID X0048d446. X0062bf7b.
__alignment_not_unique __alignment_not_unique   26177075   19063836
__ambiguous                       __ambiguous    4092735    2396166
__no_feature                     __no_feature    5747266   10189623
__not_aligned                   __not_aligned          0          0
__too_low_aQual               __too_low_aQual          0          0
ENSG00000000005.5           ENSG00000000005.5         33         29

> data <- x_merge[-(1:5),] # 前五行是不精确或重复的，需要去掉
> head(data)[1:3]
                                   ID X0048d446. X0062bf7b.
ENSG00000000005.5   ENSG00000000005.5         33         29
ENSG00000000419.11 ENSG00000000419.11       2501       1427
ENSG00000000457.12 ENSG00000000457.12       1167       1081
ENSG00000000460.15 ENSG00000000460.15        348        247
ENSG00000000938.11 ENSG00000000938.11        899       1211
ENSG00000000971.14 ENSG00000000971.14       1460       4505

> data <- data[,-1] # 去掉ID列
> head(data)[,1:3]
                   X0048d446. X0062bf7b. X00a9180b.
ENSG00000000005.5          33         29         83
ENSG00000000419.11       2501       1427        967
ENSG00000000457.12       1167       1081        574
ENSG00000000460.15        348        247        162
ENSG00000000938.11        899       1211       1100
ENSG00000000971.14       1460       4505        936
> dim(data)
[1] 60482   611 # 总计去掉5行1列

至此，我们需要的表达数据就整合到一个data.frame当中，可以用于进一步的分析了。

  • 本文作者：括囊无誉
  • 本文链接： TCGA/TCGA2move/
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