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Save as SVG Phylogeographic map Phylogenetic tree Migration distance = f(t) Transition tree Transition chart All

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Rice Yellow Mottle Virus (RYMV)

RYMV from West Africa

(Trovão et al., 2015) (Dellicour et al., 2018)

RYMV from East Africa

(Trovão et al., 2015) (Dellicour et al., 2018)

RYMV from Madagascar

(Rakotomalala et al., 2019)

West Nile Virus (WNV)

WNV from North America

(Pybus et al., 2012)

Documentation

EvoLaps Docs

Preferences

Automatic

Phylogenetic tree Migration distance = f(t) Transition tree Transition chart

Top: Geographic map Phylogenetic tree Migration distance = f(t) Transition tree Transition chart

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Warning

• 'Shift' load EvoLaps to refresh the cache of the navigator. Hold down the 'Shift' key while clicking the reload button, or 'command' key (or CTRL key) + R
• Computation of ancestral character sets from discrete variables must be performed using the NEXUS data file format with a clustered analysis as the EvoLaps data file format is currently not functional for this purpose.

How to cite

Chevenet F, Fargette D, Guindon S, Bañuls AL. EvoLaps: a web interface to visualize continuous phylogeographic reconstructions. BMC Bioinformatics. 2021 Sep 27;22(1):463. doi: 10.1186/s12859-021-04386-z. PMID: 34579644; PMCID: PMC8474961. Chevenetet al., 2021

API

Icons by Icon8 ⦙ D3 ⦙ Leaflet ⦙ jscolor ⦙ Leaflet-Heat ⦙ Leaflet-Arrowheads ⦙ jQuery ⦙ Bezier.js ⦙ svg-exportJS ⦙ Kmeans ⦙ PapaParse

Funding

• PALADIN project, publicly funded through the French National Research Agency under the “Investissements d’avenir” program with the reference ANR-10-LABX-04-01 Labex CEMEB,
• GENOSPACE ANR-16-CE02-0008 from the Agence Nationale pour la Recherche.

Acknowledgments

D. Hubert for system administration and A. Prudhon for English editing

Transitions without clustering

	Slow motion: 40
	N: Sliding Full H S
	Off
	Off
	Off

Transitions with clustering

Manual clustering

Lasso: Off	Clade: Off	Anchor: Off
Lat/Lng:	‡:	||:

Automatic clustering

K-means

k:

K-means + Lat/Lng

k:

Clusters color options

Select

color

Automatic

Set:	Bremm Cubediagonal Schumann Steiger Teuling Ziegler Hillbert

Colors from clusters

Clusters

O:

	Slow motion: 10
	N: Sliding Full H S
	Off

Path options

Layout

1

2

3

4

Opacity:	Gradient
Width:	Gradient
Offset:	Gradient

Color

Full paths

Monocolor
Gradient	root	tips

Transient paths

• ◠	◠	◠ •
Heads
Size

Highlight

◠ •

• ◠

Annotate

Geographic map

Layout

_________Jawg Terrain Streets Light Sunny Dark _________Esri NatGeoWorld World Topo World Street _________OSM OpenTopoMap Mapnik _________CartoDB Positron Voyager Voyager Labels Under DarkMatter _________StadiaXStamen Alidade Smooth Alidade Smooth Dark Outdoors Terrain TonerLite _________CyclOSM CyclOSM

no label: _________CartoDB Positron Voyager DarkMatter _________Esri Physical Imagery ShadedRelief Ocean _________StadiaXStamen Terrain

Locations

Lat:

Lng:

Sample:

Size

O

Ancestral:

Size

O

Metadata

HPD

80%

•

◯

Velocity

sample				HPD
ancestral				HPD

HPD gradient

•

◯

Layer 1D

Gradient

Layout

Opa.:	Blur:
Rad.:	Max.:

Zoo.:

Layer 2D

Boundaries

	O:
	||:

Incidence

From:

To:

Gradient with:	Quartiles Deciles
Inf/Sup

Phylogenetic tree

Info

Layout

Ladderize: up down

δ↔:		δ↕:
||:		Font:

Scale

Time scale
Most recent sampling

Annotate

Leaf labels

Migration distance = f(t)

Transition tree

Layout

Full	Compressed

Branch

Ladderize: up down
δ↔:	δ↕:	||:

Node

S:	O:
Sz Txt	Font:

Inter-cluster exchange charts

Ancestral character states

Model:	F81	Joint
Priors:	Equiprob.	Tree freq.

Output

Display

	size
Geographic map
Phylogenetic tree
Transition tree

Threshold:	M > M - 10% M > M - 20% M > M - 30% M > M - 40% M > M - 50% M
Color scale:	Cat10 Accent Dark2 Paired Pastel1 Pastel2 Set1 Set2 Set3 Tab10 grey single hue blue single hue green single hue red single hue orange single hue YlOrBr OrRd
Opacity: