{"id":67093,"date":"2026-11-14T19:45:30","date_gmt":"2026-11-14T11:45:30","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=67093"},"modified":"2026-11-14T19:45:30","modified_gmt":"2026-11-14T11:45:30","slug":"visium-hd-colorectal-cancer-bin-size-2-8-16-um","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/visium-hd-colorectal-cancer-bin-size-2-8-16-um\/","title":{"rendered":"\u770b\u7ed3\u76f4\u80a0\u764c\u817a\u4f53\u8fb9\u754c\uff0cVisium HD \u7684 2\u30018\u300116 \u00b5m \u600e\u4e48\u9009\uff1f"},"content":{"rendered":"
\n

\u540c\u4e00\u5757\u7ed3\u80a0\u817a\u4f53\uff0c\u540c\u4e00\u4e2a\u676f\u72b6\u7ec6\u80de\u6807\u8bb0\u57fa\u56e0 FCGBP\u3002\u7528 2 \u00b5m \u7f51\u683c\u753b\u56fe\uff0c\u53ea\u6709 14.2%<\/strong> \u7684\u683c\u5b50\u80fd\u68c0\u51fa\u4fe1\u53f7\u3002\u6362\u6210 16 \u00b5m\uff0c\u8fd9\u4e2a\u6bd4\u4f8b\u5347\u5230 84.7%<\/strong>\u3002\u4e24\u5f20\u56fe\u91cc\uff0cFCGBP \u7684\u53bb\u91cd\u5206\u5b50\u8ba1\u6570\u90fd\u662f 1,973 \u4e2a UMI<\/strong>\u3002\u90a3\u6761\u770b\u8d77\u6765\u66f4\u8fde\u8d2f\u7684\u8fb9\u754c\uff0c\u6709\u591a\u5c11\u6765\u81ea\u7ec4\u7ec7\u672c\u8eab\uff0c\u53c8\u6709\u591a\u5c11\u662f\u7f51\u683c\u53d8\u5927\u7684\u7ed3\u679c\uff1f<\/p>\n

\u6211\u4eec\u7528 10x Genomics \u7684\u4e00\u5f20\u516c\u5f00\u4eba\u4e59\u72b6\u7ed3\u80a0\u764c\u5207\u7247\u505a\u4e86\u6bd4\u8f83\u3002\u5bf9\u4e8e\u8fd9\u5f20\u7247\uff0c\u6574\u7247\u5206\u6790\u53ef\u4ece 8 \u00b5m \u5f00\u59cb\uff0c\u8fa8\u8ba4\u817a\u4f53\u4ea4\u754c\u65f6\u56de\u5230 2 \u00b5m \u548c\u7ec4\u7ec7\u56fe\u3002<\/strong> \u5982\u679c\u53ea\u60f3\u5148\u627e\u51fa\u5927\u7247\u7ec4\u7ec7\uff0c\u53ef\u4ee5\u4ece 16 \u00b5m \u8d77\u6b65\u300210x \u7ed3\u76f4\u80a0\u764c\u516c\u5f00\u6570\u636e<\/a><\/p>\n

\u540c\u4e00\u5757\u817a\u4f53\uff0c\u4e09\u5f20\u8868\u8fbe\u56fe\u5206\u522b\u80fd\u770b\u89c1\u4ec0\u4e48\uff1f<\/h2>\n

\u8fd9\u5f20\u5207\u7247\u6765\u81ea\u798f\u5c14\u9a6c\u6797\u56fa\u5b9a\u3001\u77f3\u8721\u5305\u57cb\uff08FFPE\uff09\u7684\u4e59\u72b6\u7ed3\u80a0\u764c\u6807\u672c\uff0c\u5207\u7247\u539a 5 \u00b5m\uff0c\u516c\u5f00\u7ed3\u679c\u7531 Space Ranger 3.0.0 \u751f\u6210\u3002\u764c\u7ec4\u7ec7\u5207\u7247\u91cc\u4e5f\u4fdd\u7559\u7740\u9ecf\u819c\u817a\u4f53\u300210x \u7684\u914d\u5957\u6559\u7a0b\u7528 FCGBP \u548c MUC2 \u8fa8\u8ba4\u5bcc\u542b\u676f\u72b6\u7ec6\u80de\u7684\u817a\u4f53\u3002\u6211\u4eec\u636e\u6b64\u6311\u4e86\u4e00\u5757\u817a\u4f53\u5f62\u6001\u53ef\u8fa8\u3001FCGBP \u4fe1\u53f7\u8f83\u4e30\u5bcc\u7684\u89c6\u91ce\uff0c\u53ef\u4ee5\u628a\u8868\u8fbe\u56fe\u76f4\u63a5\u548c\u663e\u5fae\u56fe\u5bf9\u7167\u300210x \u5bf9\u540c\u4e00\u5f20\u5207\u7247\u7684\u7ec4\u7ec7\u6807\u8bb0\u89e3\u8bfb<\/a><\/p>\n

\"\u540c\u4e00\u4e2a<\/p>\n

\u56fe 1\u3000\u56db\u5e45\u56fe\u8303\u56f4\u548c\u65b9\u5411\u4e00\u81f4\u3002\u8868\u8fbe\u56fe\u7684\u989c\u8272\u8868\u793a\u6bcf\u5e73\u65b9\u5fae\u7c73\u7684 FCGBP UMI \u6570\uff0c\u4e09\u56fe\u5171\u7528\u8272\u6807\uff0c\u8fbe\u5230 0.30 \u7684\u4f4d\u7f6e\u4f7f\u7528\u540c\u4e00\u6700\u6df1\u8272\uff0c\u4e0d\u505a\u7a7a\u95f4\u5e73\u6ed1\u3002\u201c\u68c0\u51fa\u201d\u6307\u8be5\u683c\u81f3\u5c11\u6709 1 \u4e2a FCGBP UMI\u3002\u6570\u636e\u6765\u81ea 10x Genomics\uff0c\u7531\u4e91\u751f\u4fe1\u91cd\u65b0\u5206\u7bb1\u3001\u8ba1\u7b97\u5e76\u7ed8\u56fe\u3002\u539f\u59cb 2 \u00b5m \u7f51\u683c\u7684\u884c\u53f7\u4e3a 576\u2013671\uff0c\u5217\u53f7\u4e3a 2352\u20132447\uff0c\u5747\u4ece 0 \u5f00\u59cb\u3002<\/em> \u539f\u59cb\u6570\u636e\u4e0e\u8bb8\u53ef\u8bf4\u660e<\/a> \u00b7 CC BY 4.0<\/a><\/p>\n

Visium HD \u7684 bin \u662f\u6b63\u65b9\u5f62\u7f51\u683c\u30028 \u00b5m \u7684\u4e00\u683c\u5408\u5e76\u4e86 4 \u00d7 4 \u4e2a<\/strong>\u539f\u59cb 2 \u00b5m \u5c0f\u683c\uff0c16 \u00b5m \u7684\u4e00\u683c\u5408\u5e76\u4e86 8 \u00d7 8 \u4e2a<\/strong>\u3002\u628a\u540c\u4e00\u6279 UMI \u5206\u8fdb\u66f4\u5927\u7684\u683c\u5b50\uff0c\u683c\u5185\u53ea\u8981\u6709\u4e00\u4e2a\u5c0f\u683c\u68c0\u51fa FCGBP\uff0c\u6574\u4e2a\u5927\u683c\u5c31\u4f1a\u7740\u8272\u3002\u628a\u8fd9\u5757 192 \u00d7 192 \u00b5m \u7684\u89c6\u91ce\u9010\u683c\u6570\u4e00\u904d\uff0c\u5c31\u80fd\u770b\u5230\u533a\u522b\u3002Space Ranger \u5206\u7bb1\u539f\u7406<\/a><\/p>\n

\n\n\n\n\n\n\n\n
bin \u8fb9\u957f<\/th>\n\u89c6\u91ce\u5185\u68c0\u51fa FCGBP \u7684\u683c\u6570<\/th>\n\u8bfb\u8fd9\u5f20\u56fe\u65f6\u8981\u770b\u54ea\u91cc<\/th>\n<\/tr>\n<\/thead>\n
2 \u00b5m<\/strong><\/td>\n1,313 \/ 9,216\uff0814.2%\uff09<\/td>\n\u770b\u4e0a\u65b9\u817a\u4f53\u5916\u7f18\uff0c\u6563\u70b9\u4ecd\u80fd\u52fe\u51fa\u5f27\u7ebf\u3002\u56de\u5230\u7ec4\u7ec7\u56fe\uff0c\u53ef\u4ee5\u67e5\u770b\u4fe1\u53f7\u843d\u5728\u8fb9\u754c\u54ea\u4e00\u4fa7\u3002\u5355\u4e2a\u7a7a\u683c\u53ea\u8868\u793a\u8be5\u5904\u672a\u68c0\u51fa FCGBP\u3002<\/td>\n<\/tr>\n
8 \u00b5m<\/strong><\/td>\n360 \/ 576\uff0862.5%\uff09<\/td>\n\u540c\u4e00\u5f27\u7ebf\u5bb9\u6613\u8fa8\u8ba4\uff0c\u4e2d\u95f4\u8f83\u6de1\u7684\u533a\u57df\u4e5f\u4fdd\u7559\u4e0b\u6765\u3002\u9002\u5408\u5148\u6cbf\u6574\u5f20\u5207\u7247\u5bfb\u627e\u76f8\u4f3c\u817a\u4f53\uff0c\u518d\u6311\u5c40\u90e8\u590d\u67e5\u3002<\/td>\n<\/tr>\n
16 \u00b5m<\/strong><\/td>\n122 \/ 144\uff0884.7%\uff09<\/td>\n\u8fd8\u80fd\u627e\u5230\u4fe1\u53f7\u96c6\u4e2d\u5728\u54ea\u91cc\uff0c\u4f46\u4e00\u5757\u8f83\u6df1\u7684\u65b9\u683c\u5c31\u53ef\u80fd\u6a2a\u8de8\u7ec4\u7ec7\u4ea4\u754c\u3002\u82e5\u8981\u628a\u8fd9\u6bb5\u4fe1\u53f7\u5f52\u5230\u67d0\u4fa7\u4e0a\u76ae\uff0c\u9700\u8981\u56de\u770b\u7ec6\u7f51\u683c\u3002<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n

\u8fd9\u7ec4\u767e\u5206\u6bd4\u53ea\u63cf\u8ff0\u56fe\u4e2d\u8fd9\u4e2a\u7279\u610f\u9009\u51fa\u7684\u89c6\u91ce\u3002\u4e09\u79cd\u5206\u8fa8\u7387\u91cc\u7684 FCGBP \u603b\u8ba1\u6570\u76f8\u7b49\uff0c84.7% \u6307\u7684\u662f\u68c0\u51fa\u8be5\u57fa\u56e0\u7684\u7f51\u683c\u5360\u6bd4<\/strong>\u3002\u8981\u56de\u7b54\u201c\u6709\u591a\u5c11\u676f\u72b6\u7ec6\u80de\u201d\uff0c\u8fd8\u9700\u8981\u7ec6\u80de\u8fb9\u754c\u3001\u5206\u5b50\u5f52\u5c5e\u548c\u591a\u4e2a\u6807\u8bb0\u3002\u8981\u5224\u65ad\u80bf\u7624\u6d78\u6da6\u524d\u6cbf\uff0c\u5219\u8981\u6362\u5230\u76f8\u5e94\u75c5\u7406\u533a\u57df\uff0c\u540c\u65f6\u67e5\u770b\u80bf\u7624\u548c\u95f4\u8d28\u6807\u8bb0\u300210x \u5bf9 bin \u4e0e\u7ec6\u80de\u7684\u8bf4\u660e<\/a><\/p>\n

\u6362\u6210\u81ea\u5df1\u7684\u5207\u7247\uff0c\u5148\u770b\u7814\u7a76\u95ee\u9898\u6709\u591a\u5927<\/h2>\n

\u770b\u5168\u7247\u5206\u533a\uff0c\u4ece 8 \u00b5m \u5f00\u59cb\u3002<\/strong> \u5148\u753b\u603b UMI\u3001\u4e00\u4e2a\u4e0a\u76ae\u6807\u8bb0\u548c\u4e00\u4e2a\u95f4\u8d28\u6807\u8bb0\uff0c\u518d\u53e0\u56de H&E\uff08\u82cf\u6728\u7cbe\u2013\u4f0a\u7ea2\u67d3\u8272\uff09\u7ec4\u7ec7\u56fe\u3002\u5230\u817a\u4f53\u5bc6\u96c6\u5904\u770b\u4e00\u773c\uff0c\u786e\u8ba4\u70ed\u56fe\u8fd8\u80fd\u533a\u5206\u76f8\u90bb\u7ed3\u6784\uff0c\u7136\u540e\u518d\u505a\u805a\u7c7b\u30028 \u00b5m \u4e5f\u662f 10x \u548c Seurat \u6559\u7a0b\u91c7\u7528\u7684\u5e38\u7528\u5206\u6790\u8d77\u70b9\u3002Seurat \u7684 Visium HD \u5206\u6790\u6559\u7a0b<\/a><\/p>\n

\u770b\u7a84\u8fb9\u754c\uff0c\u56de\u5230 2 \u00b5m \u7684\u5c40\u90e8\u3002<\/strong> \u6bd4\u5982\u60f3\u95ee\u201c\u817a\u4f53\u5916\u9762\u8fd9\u6392\u70b9\u4e5f\u6709 FCGBP \u5417\u201d\uff0c\u53ef\u4ee5\u4ece 8 \u00b5m \u56fe\u4e0a\u5708\u51fa\u8fb9\u7f18\uff0c\u63d0\u53d6\u540c\u4e00\u89c6\u91ce\u7684 2 \u00b5m \u539f\u59cb\u8ba1\u6570\uff0c\u53e0\u52a0 H&E\uff0c\u518d\u7528 MUC2 \u590d\u6838\u3002\u5bf9\u4e00\u4e2a\u6216\u51e0\u4e2a\u57fa\u56e0\uff0cSpace Ranger \u7684 feature slice \u6587\u4ef6\u652f\u6301\u6309\u57fa\u56e0\u8bfb\u53d6\uff0c\u53ef\u4ee5\u8df3\u8fc7\u8f7d\u5165\u6574\u5957\u8868\u8fbe\u77e9\u9635\u300210x \u6309\u57fa\u56e0\u63d0\u53d6\u7a7a\u95f4\u4fe1\u53f7\u7684\u6587\u4ef6\u8bf4\u660e<\/a><\/p>\n

\u663e\u793a\u9608\u503c\u4e5f\u4f1a\u6539\u53d8\u8fb9\u754c\u3002\u5728 Loupe \u91cc\u628a\u663e\u793a\u4e0b\u9650\u4ece 1 \u8c03\u5230 2 \u4e2a UMI\uff0c\u53ef\u4ee5\u9690\u53bb\u4e00\u90e8\u5206\u5b64\u7acb\u70b9\u3002\u4f46\u540c\u6837\u7684\u201c\u81f3\u5c11 2 \u4e2a UMI\u201d\uff0c\u5728 2 \u00b5m \u5c0f\u683c\u91cc\u76f8\u5f53\u4e8e\u6bcf\u5e73\u65b9\u5fae\u7c73\u81f3\u5c11 0.5 \u4e2a\uff0c\u5728 16 \u00b5m \u5927\u683c\u91cc\u53ea\u9700\u7ea6 0.008 \u4e2a\u3002\u505a\u8de8\u5c3a\u5ea6\u5bf9\u7167\u65f6\uff0c\u53ef\u4ee5\u4fdd\u7559\u539f\u59cb UMI \u6570\u4f5c\u4e3a\u68c0\u51fa\u4f9d\u636e\uff0c\u53e6\u5916\u7528\u5355\u4f4d\u9762\u79ef\u8ba1\u6570\u7edf\u4e00\u8272\u6807\u3002\u82e5\u8981\u6bd4\u8f83\u4e0d\u540c\u57fa\u56e0\u6216\u4e0d\u540c\u5207\u7247\u7684\u8868\u8fbe\uff0c\u8fd8\u8981\u68c0\u67e5\u6587\u5e93\u6df1\u5ea6\u548c\u5f52\u4e00\u5316\u65b9\u5f0f\u3002\u56fe 1 \u53ea\u6bd4\u8f83\u540c\u4e00\u5f20\u7247\u7684\u540c\u4e00\u4e2a\u57fa\u56e0\u300210x \u5bf9\u8be5\u6837\u672c FCGBP \u663e\u793a\u9608\u503c\u7684\u6f14\u793a<\/a><\/p>\n

\u770b\u5927\u7247\u7ec4\u7ec7\u6216\u521d\u7b5b\u591a\u5f20\u7247\uff0c\u7528 16 \u00b5m \u5feb\u901f\u5b9a\u4f4d\u3002<\/strong> \u5982\u679c\u95ee\u9898\u53ea\u662f\u54ea\u4e9b\u533a\u57df\u6574\u4f53\u5bcc\u542b\u4e0a\u76ae\u6216\u95f4\u8d28\u4fe1\u53f7\uff0c16 \u00b5m \u53ef\u4ee5\u5148\u7ed9\u51fa\u5019\u9009\u533a\u57df\u3002\u5b9a\u4e0b\u6765\u7684\u533a\u57df\u518d\u7528 8 \u00b5m \u5bf9\u7167\uff0c\u7279\u522b\u7559\u610f\u5728\u7c97\u7f51\u683c\u4e0b\u770b\u4f3c\u76f8\u8fde\u7684\u4e24\u5757\u7ec4\u7ec7\uff0c\u7ec6\u770b\u65f6\u4e2d\u95f4\u662f\u5426\u6709\u7f1d\u9699\u3002<\/p>\n

\u81ea\u5df1\u590d\u7b97\u56fe\u4e2d\u7684 1,973 \u4e2a UMI<\/h3>\n

\u4ece\u6570\u636e\u9875\u4e0b\u8f7d\u6587\u4ef6\u540d\u4ee5 _feature_slice.h5<\/code> \u7ed3\u5c3e\u7684\u7a7a\u95f4\u8868\u8fbe\u6587\u4ef6\uff0c\u653e\u5728\u5f53\u524d\u76ee\u5f55\uff0c\u5728\u88c5\u6709 NumPy \u548c h5py \u7684 Python \u73af\u5883\u4e2d\u8fd0\u884c\u3002\u5148\u6309\u539f\u59cb 2 \u00b5m \u7f51\u683c\u622a\u53d6\u56fa\u5b9a\u89c6\u91ce\uff0c\u518d\u5bf9\u9f50\u8fb9\u754c\u5408\u5e76\u8ba1\u6570\u3002\u8fd9\u6837\u505a\u53ef\u4ee5\u4fdd\u8bc1\u4e09\u6b21\u6bd4\u8f83\u8986\u76d6\u5b8c\u5168\u76f8\u540c\u7684\u7ec4\u7ec7\u9762\u79ef\u3002\u539f\u59cb feature slice \u6587\u4ef6\uff0c\u7ea6 788 MB<\/a><\/p>\n

import h5py\r\nimport numpy as np\r\n\r\nwith h5py.File("Visium_HD_Human_Colon_Cancer_feature_slice.h5", "r") as f:\r\n    names = f["features\/name"].asstr()[:].tolist()\r\n    gene = f[f"feature_slices\/{names.index('FCGBP')}"]\r\n    rows, cols, umi = (gene[key][:] for key in ("row", "col", "data"))\r\n\r\n# \u884c\u5217\u4ece 0 \u5f00\u59cb\u3002\u4e24\u4e2a\u533a\u95f4\u5747\u542b\u8d77\u70b9\u3001\u4e0d\u542b\u7ec8\u70b9\u3002\r\nrow0, col0, side = 576, 2352, 96\r\nkeep = ((rows >= row0) & (rows < row0 + side)\r\n        & (cols >= col0) & (cols < col0 + side))\r\nroi = np.zeros((side, side), dtype=np.uint32)\r\nnp.add.at(roi, (rows[keep] - row0, cols[keep] - col0), umi[keep])\r\n\r\nfor factor in (1, 4, 8):\r\n    n = side \/\/ factor\r\n    binned = roi.reshape(n, factor, n, factor).sum(axis=(1, 3))\r\n    detected = np.count_nonzero(binned)\r\n    print(f"{2 * factor} \u00b5m  {detected}\/{binned.size}  \u603b UMI {binned.sum()}")\r\n<\/code><\/pre>\n
\u53ef\u4ee5\u5148\u505a\u4e24\u4e2a\u81ea\u68c0\u3002\u7b2c\u4e00\uff0c\u4e09\u884c\u7684\u603b UMI \u90fd\u5e94\u4e3a 1,973\uff0c\u5426\u5219\u68c0\u67e5\u9009\u533a\u548c\u7f51\u683c\u8d77\u70b9\u3002\u7b2c\u4e8c\uff0c\u7b97\u68c0\u51fa\u7387\u65f6\u628a\u96f6\u8ba1\u6570\u7684\u683c\u5b50\u653e\u56de\u5206\u6bcd\u3002\u516c\u5f00\u6587\u4ef6\u6309\u7a00\u758f\u683c\u5f0f\u5b58\u50a8\uff0c\u76f4\u63a5\u6570\u8be5\u57fa\u56e0\u51fa\u73b0\u4e86\u591a\u5c11\u884c\uff0c\u4f1a\u628a\u8bb8\u591a\u96f6\u683c\u6f0f\u6389\u3002\u4e0a\u9762\u8fd9\u5757\u89c6\u91ce\u5168\u90e8\u843d\u5728\u7ec4\u7ec7\u63a9\u819c\u5185\u3002\u5982\u679c\u6362\u5230\u5207\u7247\u5916\u7f18\uff0c\u8fd8\u8981\u5254\u9664\u7ec4\u7ec7\u5916\u7684\u683c\u5b50\uff0c\u5e76\u8bf4\u660e\u5982\u4f55\u5904\u7406\u53ea\u8986\u76d6\u4e00\u90e8\u5206\u7ec4\u7ec7\u7684\u5927\u683c\u3002<\/p>\n
\u4ece\u4e00\u4e2a\u89c6\u91ce\u6269\u5230\u6574\u5f20\u5207\u7247\uff0c\u9700\u8981\u591a\u5c11\u5185\u5b58\uff1f<\/h2>\n
\u5148\u770b\u8fd9\u5f20\u7247\u771f\u6b63\u6709\u591a\u5927\u300210x \u7684\u7edf\u8ba1\u53ea\u8ba1\u7b97\u7ec4\u7ec7\u8986\u76d6\u7684\u7f51\u683c\u3002\u5206\u5230 2 \u00b5m \u65f6\uff0c\u6709 873.14 \u4e07\u4e2a\u4f4d\u7f6e<\/strong>\u9700\u8981\u5904\u7406\uff0c\u6bcf\u4e2a\u4f4d\u7f6e\u5e73\u5747\u53ea\u6709\u7ea6 31 \u4e2a UMI<\/strong>\u3002\u5408\u5230 8 \u00b5m\uff0c\u4f4d\u7f6e\u51cf\u5230\u7ea6 54.59 \u4e07\u4e2a<\/strong>\uff0c\u6bcf\u683c\u7684\u5e73\u5747 UMI \u5347\u5230\u7ea6 488 \u4e2a<\/strong>\u3002\u524d\u4e00\u9879\u51b3\u5b9a\u8981\u5904\u7406\u591a\u5c11\u4e2a\u4f4d\u7f6e\uff0c\u540e\u4e00\u9879\u5f71\u54cd\u6bcf\u4e2a\u4f4d\u7f6e\u80fd\u7528\u591a\u5c11\u4fe1\u53f7\u505a\u5206\u6790\u3002\u672c\u6837\u672c\u7684 Space Ranger \u6307\u6807\u539f\u8868<\/a><\/p>\n
\n\n\n\n\n\n\n\n
bin \u8fb9\u957f<\/th>\n\u7ec4\u7ec7\u8986\u76d6\u7684\u7f51\u683c\u6570<\/th>\n\u6bcf\u683c\u5e73\u5747 UMI<\/th>\n\u6bcf\u683c\u5e73\u5747\u68c0\u51fa\u57fa\u56e0<\/th>\n\u5047\u8bbe 2,000 \u4e2a\u57fa\u56e0\u5168\u90e8\u5c55\u5f00\u4e3a float32 \u7a20\u5bc6\u77e9\u9635<\/th>\n<\/tr>\n<\/thead>\n
2 \u00b5m<\/strong><\/td>\n8,731,400<\/td>\n30.5<\/td>\n28.7<\/td>\n65.1 GiB<\/strong><\/td>\n<\/tr>\n
8 \u00b5m<\/strong><\/td>\n545,913<\/td>\n488.4<\/td>\n393.2<\/td>\n4.1 GiB<\/strong><\/td>\n<\/tr>\n
16 \u00b5m<\/strong><\/td>\n137,051<\/td>\n1,945.9<\/td>\n1,274.8<\/td>\n1.0 GiB<\/strong><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n
\u6700\u540e\u4e00\u5217\u662f\u6309\u201c\u7ec4\u7ec7\u5185\u7f51\u683c\u6570 \u00d7 2,000 \u4e2a\u57fa\u56e0 \u00d7 \u6bcf\u4e2a\u6570 4 \u5b57\u8282\u201d\u7b97\u51fa\u7684\u4e00\u4e2a\u6570\u7ec4<\/strong>\u7684\u5927\u5c0f\u3002\u6362\u6210\u53cc\u7cbe\u5ea6\uff0c\u6570\u503c\u5360\u7528\u7ffb\u500d\u3002\u539f\u59cb\u8ba1\u6570\u53ef\u4ee5\u7a00\u758f\u5b58\u50a8\uff0c\u4f46\u82e5\u67d0\u4e00\u6b65\u628a\u6240\u6709\u4f4d\u7f6e\u7684\u6807\u51c6\u5316\u503c\u8f6c\u6210\u7a20\u5bc6\u77e9\u9635\uff0c\u5185\u5b58\u8fd8\u8981\u5bb9\u7eb3\u5df2\u6709\u5bf9\u8c61\u3001\u4e2d\u95f4\u526f\u672c\u548c\u540e\u7eed\u7684\u90bb\u63a5\u56fe\u3002\u82e5\u53ea\u770b\u5c11\u6570\u6807\u8bb0\uff0c\u6240\u9700\u7684\u5bf9\u8c61\u53c8\u53ef\u4ee5\u5c0f\u5f88\u591a\u3002<\/p>\n
\u6211\u4eec\u4ece\u540c\u4e00\u4efd feature slice \u5355\u72ec\u63d0\u53d6 FCGBP\uff0c\u5e94\u7528\u8be5\u5c3a\u5ea6\u7684\u7ec4\u7ec7\u63a9\u819c\uff0c\u7ed8\u5236\u6574\u5f20\u6355\u83b7\u533a\u57df\u7684\u5355\u57fa\u56e0\u7070\u5ea6 PNG<\/strong>\u3002\u6bcf\u6863\u7528\u72ec\u7acb\u7684 Windows 64 \u4f4d Python \u8fdb\u7a0b\u8fd0\u884c\u4e09\u6b21\uff0c\u8bb0\u5f55\u8fdb\u7a0b\u5cf0\u503c\u5de5\u4f5c\u96c6\uff0c\u4e2d\u4f4d\u6570\u7ea6\u4e3a 158 MiB\uff082 \u00b5m\uff09\u300166 MiB\uff088 \u00b5m\uff09\u300166 MiB\uff0816 \u00b5m\uff09<\/strong>\u3002\u5728\u8fd9\u4e2a\u53ea\u8bfb\u4e00\u4e2a\u57fa\u56e0\u7684\u811a\u672c\u91cc\uff0c8 \u548c 16 \u00b5m \u4e24\u6863\u7684\u5185\u5b58\u5cf0\u503c\u63a5\u8fd1\u3002\u505a\u5168\u57fa\u56e0\u805a\u7c7b\u65f6\uff0c\u5e94\u62ff\u81ea\u5df1\u7684\u8bfb\u53d6\u3001\u7f29\u653e\u3001\u964d\u7ef4\u548c\u5efa\u56fe\u6d41\u7a0b\u91cd\u65b0\u8bd5\u8dd1\u3002<\/p>\n
\u5982\u679c\u624b\u91cc\u662f FASTQ \u548c\u7ec4\u7ec7\u56fe\uff0c\u8981\u4ece\u5934\u8dd1 Space Ranger\u3002<\/strong> 10x \u4e3a Linux \u4e3b\u673a\u5217\u51fa\u7684\u8d44\u6e90\u662f\u81f3\u5c11 8 \u6838 CPU\u300164 GB \u5185\u5b58\u30011 TB \u53ef\u7528\u78c1\u76d8<\/strong>\uff0c\u63a8\u8350 32 \u6838\u3001128 GB \u5185\u5b58<\/strong>\u30021 TB \u6307\u78c1\u76d8\u7a7a\u95f4\u3002\u5df2\u6709\u516c\u5f00\u77e9\u9635\u3001\u51c6\u5907\u76f4\u63a5\u5728 Seurat \u6216 Python \u505a\u4e0b\u6e38\u7684\u8bfb\u8005\uff0c\u53ef\u4ee5\u4ece\u5b9e\u9645\u8981\u8dd1\u7684\u5206\u6790\u6b65\u9aa4\u4f30\u7b97\u8d44\u6e90\u300210x Space Ranger \u7cfb\u7edf\u8981\u6c42<\/a><\/p>\n
\u5982\u679c\u51c6\u5907\u505a\u591a\u5f20\u7247\uff0c\u5148\u8ba9\u4e00\u5f20\u4ee3\u8868\u5207\u7247\u8dd1\u5b8c\u6700\u5403\u5185\u5b58\u7684\u6b65\u9aa4\u3002<\/strong> \u4f8b\u5982\u8981\u505a 8 \u00b5m \u5168\u7247\u805a\u7c7b\uff0c\u5c31\u4e00\u76f4\u6d4b\u5230\u5efa\u90bb\u63a5\u56fe\uff0c\u8bb0\u4e0b\u5cf0\u503c\u5185\u5b58\u3001\u5de5\u4f5c\u76d8\u6700\u9ad8\u5360\u7528\u548c\u8017\u65f6\uff0c\u518d\u7528\u6570\u636e\u91cf\u6700\u5927\u7684\u4e00\u5f20\u590d\u6838\u3002\u591a\u5f20\u7247\u5206\u5f00\u8dd1\u65f6\uff0c\u7528\u5404\u4efb\u52a1\u5cf0\u503c\u548c\u9884\u8ba1\u5e76\u53d1\u6570\u521d\u4f30\u8d44\u6e90\uff0c\u518d\u7559\u51fa\u7cfb\u7edf\u4e0e\u8bfb\u5199\u4f59\u91cf\u3002\u82e5\u8981\u628a\u591a\u5f20\u7247\u5408\u5e76\u6210\u4e00\u4e2a\u5bf9\u8c61\uff0c\u5219\u7528\u4e24\u5f20\u7247\u5148\u8bd5\u4e00\u6b21\u771f\u5b9e\u7684\u5408\u5e76\u6d41\u7a0b\u3002<\/p>\n
\u5728\u88c5\u6709 GNU Time \u7684 Linux \u670d\u52a1\u5668\u4e0a\uff0c\u53ef\u4ee5\u7528\u4e0b\u9762\u7684\u547d\u4ee4\u7ed9\u81ea\u5df1\u7684\u5355\u8fdb\u7a0b<\/strong> Python \u811a\u672c\u7559\u4e00\u4efd\u8bb0\u5f55\u3002\u5c06\u793a\u4f8b\u811a\u672c\u540d\u6362\u6210\u5b9e\u9645\u6587\u4ef6\uff0c\u8fd0\u884c\u7ed3\u675f\u540e\uff0c\u5728 8um-memory.txt<\/code> \u4e2d\u67e5\u627e Maximum resident set size<\/code>\u3002Linux \u5e38\u89c1\u8f93\u51fa\u4ee5 kbytes \u6807\u6ce8\uff0c\u9664\u4ee5 1,048,576 \u53ef\u6362\u7b97\u4e3a GiB\u3002\u82e5\u4f7f\u7528\u591a\u4e2a\u72ec\u7acb\u8fdb\u7a0b\u5e76\u53d1\uff0c\u8981\u540c\u65f6\u67e5\u770b\u4f5c\u4e1a\u6216\u5bb9\u5668\u7684\u603b\u5185\u5b58\u5cf0\u503c\uff0c\u5355\u4e2a\u8fdb\u7a0b\u7684\u8bb0\u5f55\u8986\u76d6\u4e0d\u4e86\u6240\u6709\u8fdb\u7a0b\u540c\u65f6\u5360\u7528\u7684\u5185\u5b58\u3002GNU Time \u5185\u5b58\u6307\u6807<\/a><\/p>\n
\/usr\/bin\/time -v -o 8um-memory.txt python run_8um.py\r\n<\/code><\/pre>\n
\u51c6\u5907\u8dd1\u5168\u7247\u65f6\uff0c\u628a\u8fd9\u51e0\u4e2a\u6570\u5e26\u6765<\/h2>\n
\u4ece\u516c\u5f00\u6570\u636e\u770b\u4e00\u5904\u817a\u4f53\uff0c\u7528\u73b0\u6709\u7535\u8111\u6309\u57fa\u56e0\u53d6\u6570\u5c31\u80fd\u5148\u505a\u8d77\u6765\u3002\u5f53\u4efb\u52a1\u6269\u5230\u591a\u5f20 8 \u00b5m \u5168\u7247\u805a\u7c7b\uff0c\u6216\u9700\u8981\u4ece FASTQ \u91cd\u8dd1\u65f6\uff0c\u670d\u52a1\u5668\u5e94\u8be5\u6309\u90a3\u4e00\u6b65\u7684\u5b9e\u9645\u8d1f\u8f7d\u6765\u9009\u3002\u60f3\u81ea\u5df1\u7528 R \u6216 Python \u7ee7\u7eed\u5206\u6790\uff0c\u53ef\u4ee5\u628a\u5207\u7247\u6570\u3001\u6253\u7b97\u7528\u7684 bin\u3001\u8981\u8dd1\u7684\u6b65\u9aa4<\/strong>\u53d1\u7ed9\u4e91\u751f\u4fe1\u3002\u6709\u5355\u7247\u8bd5\u8dd1\u8bb0\u5f55\uff0c\u518d\u9644\u5cf0\u503c\u5185\u5b58\u6216\u62a5\u9519\u4f4d\u7f6e\uff0c\u6211\u4eec\u53ef\u4ee5\u636e\u6b64\u548c\u4f60\u6838\u5bf9\u5185\u5b58\u3001CPU\u3001\u5de5\u4f5c\u76d8\u53ca\u79df\u671f\u3002\u67e5\u770b\u4e91\u751f\u4fe1\u79d1\u7814\u670d\u52a1\u5668\u79df\u8d41\u4e0e\u914d\u7f6e\u54a8\u8be2<\/a><\/p>\n
\"\u4e91\u751f\u4fe1<\/a><\/p>\n<\/div>\n","protected":false},"excerpt":{"rendered":"
\u7528\u516c\u5f00\u4e59\u72b6\u7ed3\u80a0\u764c\u5207\u7247\u7684\u540c\u4e00\u89c6\u91ce\u5bf9\u7167 2\u30018\u300116 \u00b5m \u7f51\u683c\u3002\u9644 FCGBP \u539f\u59cb\u8ba1\u6570\u590d\u7b97\u4ee3\u7801\u3001\u6574\u7247\u5355\u57fa\u56e0\u7ed8\u56fe\u5185\u5b58\u5b9e\u6d4b\u548c\u591a\u57fa\u56e0\u77e9\u9635\u7684\u4f30\u7b97\u65b9\u6cd5\u3002<\/p>\n","protected":false},"author":1,"featured_media":67091,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_feature_clip_id":0,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_post_was_ever_published":false},"categories":[75,72],"tags":[380,381,156,379,607],"class_list":["post-67093","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-compute-environment","category-transcriptomics","tag-space-ranger","tag-visium-hd","tag-156","tag-379","tag-607"],"jetpack_sharing_enabled":true,"jetpack_featured_media_url":"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2026\/11\/visium-hd-crc-bins-20261114-fcgbp-bin-comparison.png?fit=1112%2C1310&ssl=1","_links":{"self":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/67093","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/comments?post=67093"}],"version-history":[{"count":1,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/67093\/revisions"}],"predecessor-version":[{"id":67094,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/67093\/revisions\/67094"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/media\/67091"}],"wp:attachment":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/media?parent=67093"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/categories?post=67093"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/tags?post=67093"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}