diff --git a/module_notebooks/04-read-mapping-with-vg.ipynb b/module_notebooks/04-read-mapping-with-vg.ipynb index 3502134..4d401f4 100644 --- a/module_notebooks/04-read-mapping-with-vg.ipynb +++ b/module_notebooks/04-read-mapping-with-vg.ipynb @@ -229,10 +229,8 @@ ] }, { - "cell_type": "code", - "execution_count": null, + "cell_type": "markdown", "metadata": {}, - "outputs": [], "source": [ "
\n", "Click for help\n", @@ -283,11 +281,12 @@ "-x the graph to use \n", "-b stdout is in bam format \n", "-t the number of threads to use \n", - "-p path to surject into\n", + "-p path to surject into \n", + "Graph alignment file (gam)\n", "\n", "We will redirect the output into a bam file.\n", "\n", - "We'll surget variants onto S288C_chrVIII." + "We'll surject variants onto S288C_chrVIII." ] }, { @@ -370,6 +369,12 @@ } ], "metadata": { + "environment": { + "kernel": "conda-env-nigms-pangenomics-nigms-pangenomics", + "name": "workbench-notebooks.m127", + "type": "gcloud", + "uri": "us-docker.pkg.dev/deeplearning-platform-release/gcr.io/workbench-notebooks:m127" + }, "kernelspec": { "display_name": "nigms-pangenomics", "language": "python",