Package: dotter (4.44.1+dfsg-7.1 and others)

[ Source: seqtools  ]

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.

Tags: Interface Toolkit: GTK

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Download dotter

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	4.44.1+dfsg-7.1	591.6 kB	840.0 kB	[list of files]
amd64	4.44.1+dfsg-7.1+b1	596.6 kB	805.0 kB	[list of files]
arm64	4.44.1+dfsg-7.1+b1	584.3 kB	837.0 kB	[list of files]
armel	4.44.1+dfsg-7.1+b1	576.7 kB	759.0 kB	[list of files]
armhf	4.44.1+dfsg-7.1+b1	577.8 kB	699.0 kB	[list of files]
hppa (unofficial port)	4.44.1+dfsg-7.1	593.3 kB	795.0 kB	[list of files]
i386	4.44.1+dfsg-7.1+b1	604.0 kB	835.0 kB	[list of files]
ia64 (unofficial port)	4.44.1+dfsg-7.1	621.8 kB	1,052.0 kB	[list of files]
m68k (unofficial port)	4.44.1+dfsg-7.1	592.5 kB	810.0 kB	[list of files]
mips64el	4.44.1+dfsg-7.1+b1	597.7 kB	924.0 kB	[list of files]
ppc64 (unofficial port)	4.44.1+dfsg-7.1	602.2 kB	964.0 kB	[list of files]
ppc64el	4.44.1+dfsg-7.1+b1	602.2 kB	901.0 kB	[list of files]
riscv64	4.44.1+dfsg-7.1+b1	595.1 kB	757.0 kB	[list of files]
s390x	4.44.1+dfsg-7.1+b1	592.8 kB	825.0 kB	[list of files]
sh4 (unofficial port)	4.44.1+dfsg-7.1	607.6 kB	836.0 kB	[list of files]
sparc64 (unofficial port)	4.44.1+dfsg-7.1	580.2 kB	1,554.0 kB	[list of files]
x32 (unofficial port)	4.44.1+dfsg-7.1	596.7 kB	786.0 kB	[list of files]