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[ Källkod: seqtools  ]

Paket: dotter (4.44.1+dfsg-2build1)

detailed comparison of two genomic sequences

Dotter is a graphical dot-matrix program for detailed comparison of two sequences. 

 * Every residue in one sequence is compared to every residue in the
   other, and a matrix of scores is calculated.
 * One sequence is plotted on the x-axis and the other on the y-axis.
 * Noise is filtered out so that alignments appear as diagonal lines.
 * Pairwise scores are averaged over a sliding window to make the score
   matrix more intelligible.
 * The averaged score matrix forms a three-dimensional landscape,
   with the two sequences in two dimensions and the height of the
   peaks in the third. This landscape is projected onto two
   dimensions using a grey-scale image - the darker grey of a peak,
   the higher the score is.
 * The contrast and threshold of the grey-scale image can be adjusted
   interactively, without having to recalculate the score matrix.
 * An Alignment Tool is provided to examine the sequence alignment that
   the grey-scale image represents.
 * Known high-scoring pairs can be loaded from a GFF file and overlaid
   onto the plot.
 * Gene models can be loaded from GFF and displayed alongside the
   relevant axis.
 * Compare a sequence against itself to find internal repeats.
 * Find overlaps between multiple sequences by making a dot-plot of all
   sequences versus themselves.
 * Run Dotter in batch mode to create large, time-consuming dot-plots as
   a background process.

Andra paket besläktade med dotter

  • beror
  • rekommenderar
  • föreslår
  • dep: libc6 (>= 2.14) [amd64]
    GNU C Library: Shared libraries
    också ett virtuellt paket som tillhandahålls av libc6-udeb
    dep: libc6 (>= 2.7) [i386]
  • dep: libcairo2 (>= 1.2.4)
    Cairo 2D vector graphics library
  • dep: libcurl4 (>= 7.16.2)
    easy-to-use client-side URL transfer library (OpenSSL flavour)
  • dep: libgbtools0
    library for visualising sequence alignments
  • dep: libgcc1 (>= 1:3.0)
    GCC support library
  • dep: libglib2.0-0 (>= 2.22.0)
    GLib library of C routines
  • dep: libgtk2.0-0 (>= 2.12.0)
    GTK+ graphical user interface library
  • dep: libpango-1.0-0 (>= 1.14.0)
    Layout and rendering of internationalized text
  • dep: libpangocairo-1.0-0 (>= 1.14.0)
    Layout and rendering of internationalized text
  • dep: libstdc++6 (>= 5.2)
    GNU Standard C++ Library v3

Hämta dotter

Hämtningar för alla tillgängliga arkitekturer
Arkitektur Paketstorlek Installerad storlek Filer
amd64 108,5 kbyte308 kbyte [filförteckning]
i386 117,5 kbyte334 kbyte [filförteckning]