Docker is a docking application (WindowMaker dock app)
which acts as a system tray for KDE3 and GNOME2. It can
be used to replace the panel in either environment,
allowing you to have a system tray without running the
KDE/GNOME panel.
xrootconsole is a small utility which displays its input in a transparent
text box on X's root window. It will read from any file listed on the
command line or, by default, from stdin. It is most useful when it reads
from a FIFO; this allows you to redirect multiple commands to the FIFO
and monitor their output.
XSel is a command-line program for getting and setting the contents of
the X selection. Normally this is only accessible by manually
highlighting information and pasting it with the middle mouse button.
This port is similar to x11/xsel, but with different CLI syntax and
a bit more functionality. It is a lot more popular, too.
yalias has a window with two buttons and a text widget. The left
button clears the widget (and is bound to the Escape key). The right
button matches the contents of the widget against a series of regular
expressions that the user has previously specified in their
$HOME/.yaliasrc, and executes the specified command if it matches
any of them.
GS Krab is a framework and a daemon to enable GNUstep applications to
handle the special keys on multimedia keyboards. Since this would require
special hacks to work on different platform, and since those differents
platforms work differently, I thought putting those hacks together in a
centralized daemon would be the correct and clean way to do things.
LICENSE: GPL2 or later
LZO is a data compression library which is suitable for data
de-/compression in real-time. This means it favours speed over
compression ratio.
LZO implements a number of algorithms with the following features:
+ Decompression is simple and *very* fast.
+ Requires no memory for decompression.
+ Compression is pretty fast.
+ Requires 64 kB of memory for compression.
+ Allows you to dial up extra compression at a speed cost in the
compressor. The speed of the decompressor is not reduced.
+ Includes compression levels for generating pre-compressed data
which achieve a quite competitive compression ratio.
+ There is also a compression level which needs only 8 kB for
compression.
+ Algorithm is thread safe.
+ Algorithm is lossless.
Audacity is a program that lets you manipulate digital audio
waveforms. In addition to letting you record sounds directly from
within the program, it imports many sound file formats, including
WAV, AIFF, AU, IRCAM, MP3, and Ogg Vorbis. It supports all
common editing operations such as Cut, Copy, and Paste, plus it will
mix tracks and let you apply plug-in effects to any part of a sound. It
also has a built-in amplitude envelope editor, a customizable
spectrogram mode and a frequency analysis window for audio
analysis applications.
Snd is a sound editor modeled loosely after Emacs and an old, sorely-missed
PDP-10 sound editor named Dpysnd. It can accommodate any number of sounds,
each with any number of channels, and can be customized and extended using
Guile, Ruby or Forth.
Included with it are some command-line utilities:
- snd-info (note: renamed from sndinfo, for this FreeBSD port) prints a
description of a sound file.
- sndplay plays a sound file.
- sndrecord records sound from a microphone.
- audinfo describes the current state of the audio hardware.
From the website:
T-Coffee is a multiple sequence alignment package. Given a set of sequences
(Proteins or DNA), T-Coffee generates a multiple sequence alignment.
Related publications:
- 3DCoffee: Combining Protein Sequences and Structures within Multiple
Sequence Alignments.
O. O'Sullivan, K Suhre, C. Abergel, D.G. Higgins, C. Notredame.
Journal of Molecular Biology, Vol 340, pp385-395, 2004
- T-Coffee: A novel method for multiple sequence alignments. C.Notredame,
D. Higgins, J. Heringa, Journal of Molecular Biology,Vol 302,
pp205-217,2000
- COFFEE: A New Objective Function For Multiple Sequence Alignmnent.
C. Notredame, L. Holme and D.G. Higgins,Bioinformatics,Vol 14 (5)
407-422,1998
"Wise2 is package that is focused on comparing DNA sequences at
the level of its conceptual translation, regardless of sequencing
error and introns. This really is a rewrite of the old wisetools
package, which I wrote about 3 years ago.
It can compare a single protein or a profile HMM to a genomic DNA
sequence, and predict a gene structure. This is algorithm, called
genewise, is one of the algorithms available in Wise2. There are
other algorithms focused on EST data rather than genomic data, as
well as some other algorithm curios."
- from the web site (Ewan Birney)