gff2aplot 2.0-13 source package in Ubuntu
Changelog
gff2aplot (2.0-13) unstable; urgency=medium * Team upload. * Replace tabs in gff files with spaces (Closes: #962553) -- Pranav Ballaney <email address hidden> Sun, 14 Jun 2020 11:51:26 +0530
Upload details
- Uploaded by:
- Debian Med
- Uploaded to:
- Sid
- Original maintainer:
- Debian Med
- Architectures:
- any
- Section:
- science
- Urgency:
- Medium Urgency
See full publishing history Publishing
Series | Published | Component | Section |
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Downloads
File | Size | SHA-256 Checksum |
---|---|---|
gff2aplot_2.0-13.dsc | 2.0 KiB | a723d6e939960f383b62aa067460f8f593924f4e99556daa897c4d931b6182fd |
gff2aplot_2.0.orig.tar.gz | 320.7 KiB | 33798a1f2877fc9d64aaf143c2e5bb909021b1f147c6718e61fbcc96cc65ccc3 |
gff2aplot_2.0-13.debian.tar.xz | 20.1 KiB | ee8b3169ed88156414808ad77e08537820394414bc61ebdb9f94f122d02b72e3 |
Available diffs
- diff from 2.0-11 to 2.0-13 (1.9 KiB)
- diff from 2.0-12 to 2.0-13 (1.1 KiB)
No changes file available.
Binary packages built by this source
- gff2aplot: 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.
- gff2aplot-dbgsym: debug symbols for gff2aplot