Add node for Newick Format

molecular-evolutionary-genetics-analysis.md

@@ -11,3 +11,7 @@
     - [[Newick Format]]
     - [[CSV]]
 - Does alignment via [[nucleotides]] 
+
+[//begin]: # "Autogenerated link references for markdown compatibility"
+[Newick Format]: newick-format "Newick Format"
+[//end]: # "Autogenerated link references"

newick-format.md

@@ -0,0 +1,97 @@
+# Newick Format
+
+- Format to represent trees with distances and branch names
+
+# Examples
+
+Printed using DendroPY options
+`show_internal_node_labels = True`, `width=40`, `plot_metric="length"`.
+
+## Single Descendant
+
+```
+(B)A;
+```
+```
+A------------------------------------- B
+```
+
+## Two Descendants
+
+```
+(B,C)A;
+```
+```
+/------------------------------------- B
+A
+\------------------------------------- C
+```
+
+## Two Levels Of Descendants
+
+```
+((D,E)B,(F,G)C)A;
+```
+```
+                   /------------------ D
+/------------------B
+|                  \------------------ E
+A
+|                  /------------------ F
+\------------------C
+                   \------------------ G
+```
+
+## Distances
+
+```
+(A:1,B:2);
+```
+```
+/------------------ A
+@
+\------------------------------------- B
+```
+
+## Big Example
+
+```
+(
+    (
+        (
+            (
+                Dasyatis_laosensis:0.00864712,
+                Hemitrygon_akajei:0.02501331
+            ):0.00555551,
+            Dasyatis_sp._TT:0.01190329
+        ):0.07844344,
+        Maculabatis_gerrardi:0.10443933
+    ):0.03362855,
+    (
+        Aetobatus_flagellum:0.06712780,
+        (
+            Aetobatus_narinari:0.00190402,
+            Aetobatus_ocellatus:0.00159879
+        ):0.05608476
+    ):0.06364667,
+    Squatina_squatina:0.24404039
+);
+```
+
+```
+         /Dasyatis laosensis
+        /@
+  /-----@\- Hemitrygon akajei
+  |     |
+/-@     \ Dasyatis sp. TT
+| |
+| \------- Maculabatis gerrardi
+|
+|   /----- Aetobatus flagellum
+@---@
+|   |    /Aetobatus narinari
+|   \----@
+|        \Aetobatus ocellatus
+|
+\------------------ Squatina squatina
+```