PoPoolation TE2

Brought to you by: rokofler

Downloads: 11 This Week

Last Update: 2016-09-15

Get an email when there's a new version of PoPoolation TE2

PoPoolationTE2: enables comparative population genomics of transposable elements (TE). As a major innovation PoPoolation TE2 introduces the physical pileup file which allows to homogenize the power to identify TEs and thus enables an unbiased comparison of TE abundance between samples, where samples could be pooled populations, tissues or sequenced individuals.

Project Samples

Project Activity

See All Activity >

Follow PoPoolation TE2

PoPoolation TE2 Web Site

Other Useful Business Software

Build Agents and Models on One Platform Icon

Build Agents and Models on One Platform

Everything you need to build production-ready agents and models. Access 200+ Google and third-party AI models and tools.

Gemini Enterprise Agent Platform is Google Cloud's comprehensive platform for developers to build, scale, govern, and optimize agents and models. Choose from Google's most advanced models and third-party models like Anthropic's Claude Model Family.

Try It Free

Rate This Project

Login To Rate This Project

User Reviews

Be the first to post a review of PoPoolation TE2!

Additional Project Details

Registered

2015-08-17

Report inappropriate content

Build Agents and Models on One Platform

Everything you need to build production-ready agents and models. Access 200+ Google and third-party AI models and tools.

Gemini Enterprise Agent Platform is Google Cloud's comprehensive platform for developers to build, scale, govern, and optimize agents and models. Choose from Google's most advanced models and third-party models like Anthropic's Claude Model Family.

Try It Free

Recommended Projects

popoolationte
PoPoolation TE is a quick and simple pipeline for the analysis of transposable element insertions in (natural) populations using next generation sequencing. PoPoolation TE calculates TE insertion frequencies for TEs that are present in the reference genome as well as for novel TE insertions. PoPoolation TE requires paired-end reads from a pooled population, a reference sequence and transposable element sequences . Documentation: https://sourceforge.net/p/popoolationte/wiki/Main/
popoolation
estimate natural variation and positive selection
ViralNet
ViralNet is an open-source software package for inferring the Clonal Structure of Viral Populations from Time Series Sequencing. The program aims to characterize and quantify the composition, the abundance and the evolutionary history of the underlying viral population within a given host by analyzing Next Generation Sequencing data. ViralNet takes as input the collection of reads (or several collections of reads in case of many data samples or daily data) and the reference genome and it constructs the evolutionary network exhibiting the species abundance profile and the list of haplotypes along with their prevalence.
TransposonPSI
TransposonPSI is an analysis tool to identify protein or nucleic acid sequence homology to proteins encoded by diverse families of transposable elements.
popoolation2
PoPoolation2 allows to compare allele frequencies for SNPs between two or more populations and to identify significant differences. PoPoolation2 requires next generation sequencing data of pooled genomic DNA (Pool-Seq). It may be used for measuring differentiation between populations, for genome wide association studies and for experimental evolution. Documentation: https://sourceforge.net/p/popoolation2/wiki/Main/