Balík: tnseq-transit (2.3.4-1)

[ Zdroj: 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.

Ostatné balíky súvisiace s balíkom tnseq-transit

• dep: bwa

  Burrows-Wheeler Aligner

• dep: python

  interaktívny vysokoúrovňový objektovo orientovaný jazyk (verzia python2)

• dep: python-matplotlib

  systém v Pythone na vykresľovanie v štýle podobnom Matlabu

• dep: python-numpy

  Numerical Python pridáva schopnosti rýchlych polí do jazyka Python

• dep: python-pil

  Python Imaging Library (fork Pillow)

• dep: python-pkg-resources

  objavovanie balíkov a prístup k zdrojom prostredníctvom pkg_resources

• dep: python-scipy

  vedecké nástroje pre Python

• dep: python-wxgtk3.0

  rozhranie jazyka Python k multiplatformnej sade GUI nástrojov pre C++ wxWidgets

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