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cstritt committed Sep 22, 2021
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*detettore* – a program to detect transposable element polymorphisms
====================================================================
June 2021
September 2021

Version 2.0 beta
New in version 2:
- all output in vcf format
- output of invariant sites
- genotype calling based on genotype likelihoods
- compatibility with minimap2 and other mappers
- inference of TIPs from single-end reads

<img src="detettore_ad.png" alt="drawing" width="600"/>

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2. [Multiple samples](#multiple)
3. [Combine VCF files](#combineVCFs)
3. [TE toolbox](#tools)
4. [New in version 2](#version)
5. [License](#license)
4. [License](#license)


## <a name="install"></a>Installation
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### <a name="combineVCFs"></a>Combine VCFs



## <a name="version"></a>**New in version 2**
- all output in vcf format
- output invariant sites
- genotype calling based on genotype likelihoods
- compatibility with minimap2
- tools for downstream analysis

## <a name="licence"></a>Licence
GNU General Public License v3. See LICENSE.txt for details.

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