Translations by Steve Langasek

lightweight crystal structures visualizer

GNOME Crystal is a light model visualizer for crystal-structures. It is based on the GNOME Chemistry Utils and should display models of all sorts of crystal microscopic structures using OpenGL.

Sleep-research experiment manager

Aghermann is a program designed around a common workflow in sleep-research, complete with scoring facility; cairo subpixel drawing on screen or to file; conventional PSD and EEG Micrcontinuity profiles; Independent Component Analysis; artifact detection; and Process S simulation following Achermann et al, 1993.

removal of noise from 454 sequenced PCR amplicons

AmpliconNoise is a package of applications to clean up high-throughput sequence data. It consists of three main parts:

Pyronoise - does flowgram-based clustering to spot misreads SeqNoise - removes PCR point mutations Perseus - removes PCR chimeras without the need for a set of reference sequences

Previously there was a standalone "Pyronoise" by the same authors and this package includes an updated version. There is also a "Denoiser" in Qiime which is related but distinct.

digipeater for APRS

Aprsdigi is a specialized Amateur Packet Radio (AX.25) UI-frame digipeater for the Automatic Position Reporting Systems, APRS(tm). It uses the Linux kernel AX.25 network stack as well as the SOCK_PACKET facility to listen for packets on one or more radio interfaces (ports) and repeat those packets -- with several possible modifications -- on the same or other interfaces. Aprsdigi can also use the Internet to tunnel connections among other APRS digipeaters and nodes using IPv4 or IPv6 UDP unicast or multicast.

Simple tool to mail about pending package updates - cron version

Further information can be found at <https://ardour.org/>.

genome browser and annotation tool

Artemis is a genome browser and annotation tool that allows visualisation of sequence features, next generation data and the results of analyses within the context of the sequence, and also its six-frame translation.

This package includes the Artemis genome browser, the Artemis Comparison Tool (ACT), and the DNAplotter and BamView utilities.

This is the main package that includes the Asterisk daemon and most channel drivers and applications.

Asterisk is an Open Source PBX and telephony toolkit. It is, in a sense, middleware between Internet and telephony channels on the bottom, and Internet and telephony applications at the top.

asterisk extra sound files - English/g722

Asterisk includes a set of standard sound files in various formats. This package contains several "on-hold" music files in raw G.722 format (mildly compressed wide-band codec).

Educational astronomy applications

This metapackage depends on various applications that can be used to teach astronomy.

makes managing and searching for music easier

AudioLink is a tool that makes searching for music on your local storage media easier and faster. Your searches can include a variety of criteria, like male artists, female artists, band, genre, etc.

It works with MP3 and Ogg Vorbis files and creates a MySQL database in which it stores the information about the music files. It creates symbolic links to the actual music files based on the search results. You can search for multiple fields, like artist, band, composer, lyricist, etc.

AUDio MEasurement System

Multi-platfrom system for audio measurement through sound card in the PC. Incorporates Generator, Oscilloscope, FFT, Sweep frequency characteristic. Useful for measuring stereo and speaker performance.

automatic classification or clustering

AutoClass solves the problem of automatic discovery of classes in data (sometimes called clustering, or unsupervised learning), as distinct from the generation of class descriptions from labeled examples (called supervised learning). It aims to discover the "natural" classes in the data. AutoClass is applicable to observations of things that can be described by a set of attributes, without referring to other things. The data values corresponding to each attribute are limited to be either numbers or the elements of a fixed set of symbols. With numeric data, a measurement error must be provided.

Syntax Highlighting for Computational Biology (metapackage)

This is a metapackage depending on all bioSyntax plugins.

Syntax highlighting for computational biology to bring you intuitively close to your data. BioSyntax supports .sam, .flagstat, .vcf, .fasta, .fastq, .faidx , .clustal, .pdb, .gtf, .bed files & more.

Bio++ Phylogenetic Viewer

A phylogenetic tree editor developed using Bio++ and Qt. Phyview allows one to visualize, edit, print and output phylogenetic trees and associated data.

measure and adjust audio and video sound loudness

The command line tool bs1770gain is a loudness scanner compliant with ITU-R BS.1770 and its flavors EBU R128, ATSC A/85, and ReplayGain 2.0. It helps normalizing the loudness of audio and video files to the same level.

system load dockapp with a duck

A load monitor dockapp, descended from wmfishtime and bubblemon. Features include fish representing network traffic, bubbles representing CPU usage, and a duck representing a duck.

field-theory motivated computer algebra system

Cadabra is a computer algebra system designed specifically for the solution of problems encountered in field theory. It has extensive functionality for tensor polynomial simplification including multi-term symmetries, fermions and anti-commuting variables, Clifford algebras and Fierz transformations, implicit coordinate dependence, multiple index types and many more. The input format is a subset of TeX.

Qt client for the music player daemon (MPD)

Cantata is a graphical front-end for the music player daemon, MPD. It provides many tools to view and manage the music collection including:

suite of programs designed to quickly group sequences

cd-hit contains a number of programs designed to quickly group sequences. cd-hit groups proteins into clusters that meet a user-defined similarity threshold. cd-hit-est is similar to cd-hit, but designed to group nucleotide sequences (without introns). cd-hit-est-2d is similar to cd-hit-2d but designed to compare two nucleotide datasets. A number of other related programs are also in this package. Please see the cd-hit user manual, also part of this package, for further information.

Drawings can be exported to MOL and PDB format, SVG or XFig format for further annotation, as a PiCTeX drawing, as a bitmap or as Postscript files (several of these through XFig's companion program fig2dev).

circularize genome assemblies

Circlator is a tool to automate assembly circularization for bacterial and small eukaryotic genomes and produce accurate linear representations of circular sequences.

plotter for visualizing data

This package provides the Circos plotting engine, which is command-line driven (like gnuplot) and fully scriptable.

lightweight ncurses audio player

C* Music Player is a modular and very configurable ncurses-based audio player. It has some interesting features like configurable colorscheme, mp3 and ogg streaming, it can be controlled with an UNIX socket, filters, album/artists sorting and a vi-like configuration interface.