add resubmission materials

blab · Sep 28, 2023 · 2a7869b · 2a7869b
1 parent e6b6665
commit 2a7869b
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Showing 241 changed files with 19,750,361 additions and 519 deletions.
diff --git a/adaptive-evolution-analysis/Figure4.ipynb b/adaptive-evolution-analysis/Figure4.ipynb
@@ -2,7 +2,7 @@
  "cells": [
   {
    "cell_type": "code",
-   "execution_count": 1,
+   "execution_count": 5,
    "id": "37d14452",
    "metadata": {},
    "outputs": [],
@@ -37,18 +37,18 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 2,
+   "execution_count": 6,
    "id": "08fdb750",
    "metadata": {},
    "outputs": [],
    "source": [
     "#calculated in Fig 2 notebook\n",
-    "threshold_antigenic_evo = {'bhatt': 0.94, 'kistler': 1.14}"
+    "threshold_antigenic_evo = {'bhatt': 0.94, 'kistler': 1.17}"
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 3,
+   "execution_count": 7,
    "id": "f8898d96",
    "metadata": {},
    "outputs": [],
@@ -61,7 +61,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 4,
+   "execution_count": 8,
    "id": "7deb0779",
    "metadata": {},
    "outputs": [],
@@ -77,7 +77,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 5,
+   "execution_count": 9,
    "id": "73ad1f80",
    "metadata": {},
    "outputs": [],
@@ -181,7 +181,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 6,
+   "execution_count": 10,
    "id": "333d0f9d",
    "metadata": {},
    "outputs": [],
@@ -248,7 +248,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 7,
+   "execution_count": 11,
    "id": "1444fbb4",
    "metadata": {},
    "outputs": [],
@@ -273,7 +273,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 8,
+   "execution_count": 12,
    "id": "f1655a83",
    "metadata": {},
    "outputs": [],
@@ -315,7 +315,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 9,
+   "execution_count": 13,
    "id": "2a63cd3e",
    "metadata": {},
    "outputs": [],