Bug#990856: ITP: tandem-genotypes -- compare lengths of duplications in DNA sequences
Package: wnpp
Severity: wishlist
Subject: ITP: tandem-genotypes -- compare lengths of duplications in DNA sequences
Package: wnpp
Owner: Steffen Moeller <moeller@debian.org>
Severity: wishlist
* Package name : tandem-genotypes
Version : 1.8.2
Upstream Author : Martin C. Frith <mcfrith@gmail.com>
* URL : https://github.com/mcfrith/tandem-genotypes
* License : GPL-3.0
Programming Lang: Python
Description : compare lengths of duplications in DNA sequences
Only a fraction of the DNA in the human genome (and that of other species
that are not optimised for the speed of their replication like viruses)
are coding for genes. Other parts may be binding to transcription factors
or direct the expression of genes in other ways - these other bits may
not be fully understood, and parts may indeed be "junk", but this is
only until we find a clinical feature to be statistically associated
with something statistically noteworthy in the DNA sequences.
.
Features that somehow seem informative when looking at the DNA are
whatever does not look like random. This tool looks at a special case
of repeats - short regions that are duplicated, i.e. they appear as a
tandem. When these repeats are longer, then these would be referred as
microsatellites.
.
When interested in structural variations, within a family/population or
to compare cancer tissue with benign samples, you may also want to look
at these repeats. This software determines the lengths (and changes to
the lenghts) across samples and knows how to present this graphically.
Remark: This package is maintained by Steffen Moeller at
https://salsa.debian.org/med-team/tandem-genotypes
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