[ 原始碼： gff2aplot ]
套件：gff2aplot（2.0-13）
pair-wise alignment-plots for genomic sequences in PostScript
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 one to show color pseudo-blending when horizontal and vertical ribbons overlap.
其他與 gff2aplot 有關的套件
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- dep: libc6 (>= 2.17)
- GNU C 函式庫：共用函式庫
同時作為一個虛擬套件由這些套件填實： libc6-udeb
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- dep: perl
- Larry Wall's Practical Extraction and Report Language
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- rec: ghostscript
- interpreter for the PostScript language and for PDF
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- rec: graphicsmagick
- collection of image processing tools
- 或者 imagemagick
- image manipulation programs -- binaries
同時作為一個虛擬套件由這些套件填實： graphicsmagick-imagemagick-compat, imagemagick-6.q16
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- sug: gff2ps
- produces PostScript graphical output from GFF-files
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- sug: postscript-viewer
- 本虛擬套件由這些套件填實： atril, evince, ghostscript, gv, okular, qpdfview-ps-plugin, zathura-ps