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• Introduction
• Manual
• Walkthroug Visualization
• Validation

Introduction

Invade simulate TE invasion under different models

Manual

• [Invade] overview of invade
• [classic] simulate TE invasions with negative selection counteracting the TE
• [cluster] simulate TE invasions with piRNA clusters
• [truncdeme]
• [ReleaseNotes]

Walkthroug Visualization

• [ClassicInvasionFitness] Classic invasion dynamics with invasion being counteracted by increased negative selection against TES.
• [ClusterInvasion] Invasion of a TE when piRNA clusters are present
• [ClusterInvasionMHP] Manhattanplots for cluster invasion
• [ClusterInvasionInsertionTally] Histograms showing the number of insertions per diploid individual
• [ClusterInvasionSFS] Site frequency spectrum

Validation

• [Invasion] Test if the exponential increase in TE copy numbers is simulated corretly
• [Drift] Test if drift is simulated correctly
• [TEDistribution] Test if insertion sites of novel TEs are simulated correctly, especially when chromosomes have different size
• [Cluster] Test if TE suppression by piRNA clusters is simulated correctly

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Project Members:

• Robert Kofler (admin)