Update m3c_template.ipynb

lhqing · Apr 17, 2021 · e63e35b · e63e35b
1 parent 8d545bd
commit e63e35b
Showing 1 changed file with 5 additions and 11 deletions.
diff --git a/cemba_data/files/mapping_summary_template/m3c_template.ipynb b/cemba_data/files/mapping_summary_template/m3c_template.ipynb
@@ -294,7 +294,10 @@
     "reads_cutoff = 100 if miseq_guess else 500000\n",
     "low_reads = mapping_summary['FinalmCReads'] < reads_cutoff\n",
     "\n",
-    "success = ~high_mccc & ~low_reads\n",
+    "cis_long_cutoff = 5000\n",
+    "low_contacts = mapping_summary['CisLongContact'] <= cis_long_cutoff\n",
+    "\n",
+    "success = ~high_mccc & ~low_reads & ~low_contacts\n",
     "n_cell = mapping_summary.shape[0]\n",
     "n_plate = mapping_summary['Plate'].unique().size\n",
     "total_wells = n_plate * 384"
@@ -946,15 +949,6 @@
    "start_time": "2020-09-20T06:43:07.163324",
    "version": "2.1.3"
   },
-  "pycharm": {
-   "stem_cell": {
-    "cell_type": "raw",
-    "metadata": {
-     "collapsed": false
-    },
-    "source": []
-   }
-  },
   "toc": {
    "base_numbering": 1,
    "nav_menu": {},
@@ -971,4 +965,4 @@
  },
  "nbformat": 4,
  "nbformat_minor": 4
-}
+}