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Add node for Newick Format

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Aly 2021-10-15 11:43:34 -07:00
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molecular-evolutionary-genetics-analysis.md
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- [[Newick Format]]
- [[CSV]]
- Does alignment via [[nucleotides]]
[//begin]: # "Autogenerated link references for markdown compatibility"
[Newick Format]: newick-format "Newick Format"
[//end]: # "Autogenerated link references"

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# 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
```