Revert "Change input type of pca.fit_transform to ndarray"

JohnMMa · JohnMMa · commit 8a30f19cba4a · 2023-07-25T13:28:00.000-07:00
This reverts commit b4371fa.
diff --git a/kb_python/report/report_matrix.ipynb b/kb_python/report/report_matrix.ipynb
@@ -158,7 +158,7 @@
     "sc.pp.normalize_total(adata, target_sum=1e4)\n",
     "sc.pp.log1p(adata)\n",
     "pca = PCA(n_components=10)\n",
-    "pc = pca.fit_transform(adata.X.toarray())"
+    "pc = pca.fit_transform(adata.X.todense())"
    ]
   },
   {

Original file line number	Diff line number	Diff line change
`@@ -158,7 +158,7 @@`
`158`	`158`	`"sc.pp.normalize_total(adata, target_sum=1e4)\n",`
`159`	`159`	`"sc.pp.log1p(adata)\n",`
`160`	`160`	`"pca = PCA(n_components=10)\n",`
`161`		`- "pc = pca.fit_transform(adata.X.toarray())"`
	`161`	`+ "pc = pca.fit_transform(adata.X.todense())"`
`162`	`162`	`]`
`163`	`163`	`},`
`164`	`164`	`{`