Paketti: tnseq-transit (3.3.4-1 ja muut)

[ 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.

Muut pakettiin tnseq-transit liittyvät paketit

• dep: bwa [ei ia64, sparc64]

  Burrows-Wheeler Aligner

• dep: python [ia64, sparc64]

  Paketti ei saatavilla

• dep: python-matplotlib [ia64, sparc64]

  Paketti ei saatavilla

• dep: python-numpy [ia64, sparc64]

  Paketti ei saatavilla

• dep: python-pillow [ia64, sparc64]

  Paketti ei saatavilla

• dep: python-pkg-resources [ia64, sparc64]

  Paketti ei saatavilla

• dep: python-scipy [ia64, sparc64]

  Paketti ei saatavilla

• dep: python-wxgtk3.0 [ia64, sparc64]

  Paketti ei saatavilla

• dep: python3 [ei ia64, sparc64]

  interactive high-level object-oriented language (default python3 version)

• dep: python3-matplotlib [ei ia64, sparc64]

  Python based plotting system in a style similar to Matlab

• dep: python3-numpy [ei ia64, sparc64]

  Fast array facility to the Python language (Python 3)

• dep: python3-pil [ei ia64, sparc64]

  Python Imaging Library (Python3)

• dep: python3-pkg-resources [ei ia64, sparc64]

  Package Discovery and Resource Access using pkg_resources

• dep: python3-pubsub [ei ia64, sparc64]

  Python 3 publish-subcribe library

• dep: python3-scipy [ei ia64, sparc64]

  scientific tools for Python 3

• dep: python3-sklearn [ei alpha, ia64, sparc64, x32]

  Python modules for machine learning and data mining - Python 3

• dep: python3-statsmodels [ei ia64, sparc64]

  Python3 module for the estimation of statistical models

• dep: python3-wxgtk4.0 [ei ia64, sparc64]

  Python 3 interface to the wxWidgets Cross-platform C++ GUI toolkit

Imuroi tnseq-transit

Imurointi kaikille saataville arkkitehtuureille

Arkkitehtuuri	Versio	Paketin koko	Koko asennettuna	Tiedostot
alpha (epävirallinen siirros)	3.1.0-2	6,757.1 kt	41,315.0 kt	[tiedostoluettelo]
amd64	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
arm64	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
armel	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
armhf	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
hppa (epävirallinen siirros)	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
i386	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
ia64 (epävirallinen siirros)	2.3.2-1	5,916.9 kt	35,975.0 kt	[tiedostoluettelo]
m68k (epävirallinen siirros)	3.3.4-1	29,212.5 kt	163,131.0 kt	[tiedostoluettelo]
mips64el	3.3.4-1	29,212.5 kt	163,131.0 kt	[tiedostoluettelo]
ppc64 (epävirallinen siirros)	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
ppc64el	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
riscv64	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
s390x	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
sh4 (epävirallinen siirros)	3.3.4-1	29,212.4 kt	163,131.0 kt	[tiedostoluettelo]
sparc64 (epävirallinen siirros)	2.3.2-1	5,916.9 kt	35,975.0 kt	[tiedostoluettelo]
x32 (epävirallinen siirros)	3.1.0-2	6,757.1 kt	41,315.0 kt	[tiedostoluettelo]