diff --git a/notebooks/plink_convert.ipynb b/notebooks/plink_convert.ipynb
index 473da2c85..f6768f7b5 100644
--- a/notebooks/plink_convert.ipynb
+++ b/notebooks/plink_convert.ipynb
@@ -6,172 +6,15 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "import malariagen_data\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
+    "import malariagen_data\n",
+    "\n",
     "ag3 = malariagen_data.Ag3(pre=True)\n",
     "\n",
     "ag3.biallelic_snps_to_plink(results_dir='/Users/dennistpw/Projects/malariagen-data-python/',\n",
     "                            region='2L:100000-2000000',\n",
     "                            n_snps=2000,\n",
     "                            sample_sets='AG1000G-AO',\n",
-    "                            )"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": []
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "region='2L:1001000-2009000',\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "ds = ag3.snp_calls(\n",
-    "    region=region,\n",
-    "    sample_sets=sample_sets\n",
-    ")"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "# Perform an allele count.\n",
-    "ac = ag3.snp_allele_counts(\n",
-    "    region=region,\n",
-    "    sample_sets=sample_sets\n",
-    ")\n",
-    "\n",
-    "# Locate biallelic SNPs.\n",
-    "loc_bi = allel.AlleleCountsArray(ac).is_biallelic()\n",
-    "\n",
-    "# Remap alleles to squeeze out unobserved alleles.\n",
-    "ac_bi = ac[loc_bi]\n",
-    "allele_mapping = trim_alleles(ac_bi)"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "ds_bi = ds.isel(variants=loc_bi)\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "ds_bi['variant_allele'].compute()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "from typing import Any, Dict, List, Optional, Tuple, Union\n"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "# Start building a new dataset.\n",
-    "coords: Dict[str, Any] = dict()\n",
-    "data_vars: Dict[str, Any] = dict()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "# Store sample IDs.\n",
-    "coords[\"sample_id\"] = (\"samples\",), ds_bi[\"sample_id\"].data\n",
-    "\n",
-    "# Store contig.\n",
-    "coords[\"variant_contig\"] = (\"variants\",), ds_bi[\"variant_contig\"].data\n",
-    "\n",
-    "# Store position.\n",
-    "coords[\"variant_position\"] = (\"variants\",), ds_bi[\"variant_position\"].data"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "import dask.array as da\n",
-    "variant_allele = ds_bi[\"variant_allele\"].data\n",
-    "variant_allele = variant_allele.rechunk((variant_allele.chunks[0], -1))\n",
-    "variant_allele_out = da.map_blocks(\n",
-    "    lambda block: apply_allele_mapping(block, allele_mapping, max_allele=1),\n",
-    "    variant_allele,\n",
-    "    dtype=variant_allele.dtype,\n",
-    "    chunks=(variant_allele.chunks[0], [2]),\n",
-    ")\n",
-    "variant_allele_out.compute()\n",
-    "# Store allele counts, transformed, so we don't have to recompute.\n",
-    "#ac_out = apply_allele_mapping(ac_bi, allele_mapping, max_allele=1)\n",
-    "#data_vars[\"variant_allele_count\"] = (\"variants\", \"alleles\"), ac_out"
-   ]
-  },
-  {
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "When we try to select only biallelic snps, we\n",
-    "- count the number of alleles\n",
-    "- select only"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "allele_mapping"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "variant_allele.shape[0]"
+    "                            )\n"
    ]
   }
  ],
@@ -191,7 +34,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.8.19"
+   "version": "3.10.10"
   }
  },
  "nbformat": 4,