ExP Heatmap (by Edvard Ehler and Jan Paces): Extended Cross-Population Heatmap, visualization of highly dimentional datasets of pairwise values. Designed to display results (significance, p-values) for cross-population selection tests for 1000 Genomes, phase 3 sample-set, but can be tweaked to display the results for arbitrary number of groups/populations.
LOHIRIA (by Jan Paces & Jakub Galgonek): Localization of High Identity Regions In Alignment. Program designed for helping with alergenic assesment (rules by WHO) or horizontal gene transfer (guidance by EFSA).
draw_chromosome_gc.pl (by Jan Paces): This program is in perl. It is designed
for drawing pictures of gc profiles of long nucleotide sequences,
e.g. whole chromosomes. This version needs to have installed
perl (>5.0) with GD.pm module. Everything you need you can find at CPAN.
DicodonUsage (by Jan Paces): This set of perl scripts visualize dicodon bios
in procaryotic genomes. It consist from count_dicodons.pl, which counts dicodons in given training
set and two scripts dicodons.pl and dicodons_seq.pl, which draw dicodon preferences for
six reading frames.
phyloMOD (by Simone Scalabrin): Perl script to compare
orthologous sequences and extract putative regulatory regions.
It is based on modular structure of regulatory regions and phylogenetic
footprinting of orthologous sequences.
| Jan Paces Last modified: Thu Apr 7 15:20:46 CEST 2005 |
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