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    "Arc compare plots\n",
    "=================\n",
    "\n",
    "Arc compare plots are a flexible plot type for comparing multiple layers of RNA\n",
    "data between two samples. Sequence annotations, per-nucleotide data,\n",
    "inter-nucleotide data, and secondary structures can all be displayed.\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "import rnavigate as rnav\n",
    "from rnavigate.examples import rnasep_1, rnasep_2\n",
    "\n",
    "plot = rnav.plot_arcs_compare(\n",
    "    samples=[rnasep_1, rnasep_2],  # two example RNAvigate samples (SHAPE-treated RNaseP)\n",
    "    sequence=\"ss_pdb\",             # all data are sequence aligned to \"ss_pdb\" (for each sample)\n",
    "    interactions=\"ringmap\",        # plot interactions\n",
    ")\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "help(rnav.plot_arcs_compare)"
   ]
  }
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