Paket: sepp (4.3.10+dfsg-5)

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phylogeny with ensembles of Hidden Markov Models

The tools SEPP and TIPP implementing these methods use ensembles of Hidden Markov Models (HMMs) in different ways, each focusing on a different problem.

SEPP stands for "SATe-enabled Phylogenetic Placement", and addresses the problem of phylogenetic placement of short reads into reference alignments and trees.

TIPP stands for "Taxonomic Identification and Phylogenetic Profiling", and addresses the problem of taxonomic identification and abundance profiling of metagenomic data.

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dep: hmmer

Profil-Hidden-Markov-Modelle für Protein-Sequenzanalyse
dep: libcommons-beanutils-java

Apache Commons BeanUtils - Utility for manipulating Java beans
dep: libcommons-collections3-java

Apache Commons Collections - Java-API für die »Extended Collections«
dep: libcommons-lang-java

Commons Lang - Erweiterung des Pakets java.lang
dep: libcommons-logging-java

Gemeinsame Wrapper-Schnittstelle für verschiedene Protokollierungs-APIs
dep: libgoogle-gson-java

Converts Java objects into their JSON representation
dep: libjenkins-json-java

Library for transforming Java objects between XML and JSON
dep: libjson-java

library for transforming Java objects and XML to JSON and back again
dep: ncbi-blast+

next generation suite of BLAST sequence search tools
dep: pplacer

phylogenetic placement and downstream analysis
dep: python3

Interaktive objektorientierte Hochsprache (Python3-Standardversion)
dep: python3-dendropy

DendroPy Phylogenetic Computing Library (Python 3)

sepp herunterladen

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