Paquet : tnseq-transit (3.3.12-1)

[ Paquet source : tnseq-transit  ]

statistical calculations of essentiality of genes or genomic regions

This is a software that can be used to analyze Tn-Seq datasets. It includes various statistical calculations of essentiality of genes or genomic regions (including conditional essentiality between 2 conditions). These methods were developed and tested as a collaboration between the Sassetti lab (UMass) and the Ioerger lab (Texas A&M)

TRANSIT is capable of analyzing TnSeq libraries constructed with Himar1 or Tn5 datasets.

TRANSIT assumes you have already done pre-processing of raw sequencing files (.fastq) and extracted read counts into a .wig formatted file. The .wig file should contain the counts at all sites where an insertion could take place (including sites with no reads). For Himar1 datasets this is all TA sites in the genome. For Tn5 datasets this would be all nucleotides in the genome.

Autres paquets associés à tnseq-transit

• dep: bwa

  dispositif d'alignement Burrows-Wheeler

• dep: python3

  langage orienté objet interactif de haut niveau – version par défaut de Python 3

• dep: python3-matplotlib

  système de traçage basé sur Python dans un style similaire à celui Matlab

• dep: python3-numpy

  Fast array facility to the Python language (Python 3)

• dep: python3-pil

  Python Imaging Library (Python3)

• dep: python3-pubsub

  Python 3 publish-subcribe library

• dep: python3-scipy

  outils scientifiques pour Python 3

• dep: python3-sklearn

  Python modules for machine learning and data mining - Python 3

• dep: python3-statsmodels

  Python3 module for the estimation of statistical models

• dep: python3-wheel

  built-package format for Python

• dep: python3-wxgtk4.0

  interface de Python 3 pour la boite à outils graphiques multiplateforme en C++

Télécharger tnseq-transit

Télécharger pour toutes les architectures proposées

Architecture	Taille du paquet	Espace occupé une fois installé	Fichiers
amd64	17 162,1 ko	98 383,0 ko	[liste des fichiers]