💄 Prettify scrna guide

laminlabs · Aug 6, 2024 · 030d4b9 · 030d4b9
1 parent 2b57ed6
commit 030d4b9
Showing 1 changed file with 73 additions and 10 deletions.
diff --git a/docs/scrna.ipynb b/docs/scrna.ipynb
@@ -117,7 +117,11 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "curate = ln.Curate.from_anndata(\n",
@@ -136,7 +140,11 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "curate.add_new_from_var_index()"
@@ -145,7 +153,11 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "curate.validate()"
@@ -154,7 +166,11 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "curate.add_new_from(\"donor\")\n",
@@ -164,7 +180,11 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "curate.add_validated_from(\"all\")"
@@ -173,7 +193,11 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "curate.validate()"
@@ -199,15 +223,46 @@
     "artifact = curate.save_artifact(description=\"Human immune cells from Conde22\")"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "It is annotated with rich metadata:"
+   ]
+  },
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "artifact.describe()"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "You can also see the types of the metadata:"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
+   "outputs": [],
+   "source": [
+    "artifact.describe(print_types=True)"
+   ]
+  },
   {
    "cell_type": "markdown",
    "metadata": {},
@@ -254,7 +309,11 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
     "collection.describe()"
@@ -270,10 +329,14 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
    "outputs": [],
    "source": [
-    "collection.ordered_artifacts"
+    "collection.artifacts"
    ]
   },
   {