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gff2aplot - pair-wise alignment-plots for genomic sequences in PostScript
/Main/Debian/hurd-i386/science/
A program to visualize the alignment of two genomic sequences together with their annotations. From GFF-format input files it produces PostScript figures for that alignment. The following menu lists many features of gff2aplot: * Comprehensive alignment plots for any GFF-feature. Attributes are defined separately so you can modify only whatsoever attributes for a given file or share same customization across different data-sets. * All parameters are set by default within the program, but it can be also fully configured via gff2ps-like flexible customization files. Program can handle several of such files, summarizing all the settings before producing the corresponding figure. Moreover, all customization parameters can be set via command-line switches, which allows users to play with those parameters before adding any to a customization file. * Source order is taken from input files, if you swap file order you can visualize alignment and its annotation with the new input arrangement. * All alignment scores can be visualized in a PiP box below gff2aplot area, using grey-color scale, user-defined color scale or score-dependent gradients. * Scalable fonts, which can also be chosen among the basic PostScript default fonts. Feature and group labels can be rotated to improve readability in both annotation axes. * The program is still defined as a Unix filter so it can handle data from files, redirections and pipes, writing output to standard-output and warnings to standard error. * gff2aplot is able to manage many physical page formats (from A0 to A10, and more -see available page sizes in its manual-), including user-defined ones. This allows, for instance, the generation of poster size genomic maps, or the use of a continuous-paper supporting plotting device, either in portrait or landscape. * You can draw different alignments on same alignment plot and distinguish them by using different colors for each. * Shape dictionary has been expanded, so that further feature shapes are now available (see manual). * Annotation projections through alignment plots (so called ribbons) emulate transparencies via complementary color fill patterns. This feature allows to show color pseudo-blending when horizontal and vertical ribbons overlap.
Homepage: - Package version: 2.0-5 Architecture: hurd-i386 Distribution: Debian Filename: gff2aplot_2.0-5_hurd-i386.deb
Browse inside gff2aplot_2.0-5_hurd-i386.deb:
pkg://gff2aplot_2.0-5_hurd-i386.deb:326810/ downloads2.72 KB 2008-02-28control view 2 mirrors
4.89 KB 2008-02-28md5sums view 128 mirrors
[DIR]usr/ 1000+ twin directories
Download gff2aplot_2.0-5_hurd-i386.deb:
2008-07-02 ftp://130.75.2.22/pub/mirror/linux/debian-mirror/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.jp.xemacs.org/pub/linux/debian/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.duth.gr/pub/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.funet.fi/.m/mirrors3/ftp.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.gnome.org/cdimage/.debian-mirror/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.li.kernel.org/pub/.3/ftp.debian.org/pub/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.gmd.de/ftp.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.udc.es/mirror/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.cica.es/mirrors/Linux/debian/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.nerim.net/mirrors/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://129.102.1.25/pub/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.kfki.hu/pub/linux/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://64.50.236.52/.1/debian/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://64.50.238.52/.1/debian/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.tu-chemnitz.de/.SAN0/pub/linux/debian/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.free.fr/.mirrors1/ftp.debian.org/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://24.215.0.24/Debian/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.stu.edu.tw/Linux/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.tu-ilmenau.de/Mirrors/ftp.de.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.bme.hu/OS/Linux/dist/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.tudelft.nl/d1/Linux/ftp.debian.org/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://200.17.202.1/debian-dists/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://200.17.202.16/debian-dists/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://200.17.202.17/debian-dists/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.br.debian.org/debian-dists/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.linorg.usp.br/debian-raiz/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://130.225.254.99/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://161.53.160.16/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://212.87.224.145/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://217.75.96.164/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://77.88.19.68/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://cudlug.cudenver.edu/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://debian.lcs.mit.edu/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.ankara.edu.tr/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.at.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.bg.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.bononia.it/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.cl.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.debian.or.jp/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.fr.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.hands.com/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.linux.it/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.med.univ-tours.fr/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.nz.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.port80.se/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.sac.sk/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.tuke.sk/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.uevora.pt/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp2.sk.freebsd.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
2008-02-29 ftp://ftp.tugraz.at/ftp.tu-graz.ac.at/.mirror-sites/ftp.at.debian.org/debian/pool/main/g/gff2aplot/gff2aplot_2.0-5_hurd-i386.deb
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