Packages — S (Page 3 of 3)
sra-tools 2.8.2-1 — Tools and libraries for reading and writing sequencing data
The SRA Toolkit from NCBI is a collection of tools and libraries for reading of sequencing files from the Sequence Read Archive (SRA) database and writing files into the .sra format.
- License: Public Domain.
- Website: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software.
- Package source: bioinformatics.scm.
- Patches: None.
- Lint issues: No.
- Builds: x86_64-linux, i686-linux.
sratom 0.6.0 — Library for serialising LV2 atoms to/from RDF
Sratom is a library for serialising LV2 atoms to/from RDF, particularly the Turtle syntax.
src 1.18 — Simple revision control
SRC (or src) is simple revision control, a version-control system for single-file projects by solo developers and authors. It modernizes the venerable RCS, hence the anagrammatic acronym. The design is tuned for use cases like all those little scripts in your
~/bin directory, or a directory full of HOWTOs.
srt2vtt 0.1 — SubRip to WebVTT subtitle converter
srt2vtt converts SubRip formatted subtitles to WebVTT format for use with HTML5 video.
ssdeep 2.13 — Context-triggered piecewise hashing algorithm
ssdeep computes and matches context triggered piecewise hashes (CTPH), also called fuzzy checksums. It can identify similar files that have sequences of identical bytes in the same order, even though bytes in between these sequences may be different in both content and length.
sshfs-fuse 2.10 — Mount remote file systems over SSH
This is a file system client based on the SSH File Transfer Protocol. Since most SSH servers already support this protocol it is very easy to set up: on the server side there's nothing to do; on the client side mounting the file system is as easy as logging into the server with an SSH client.
sshoot 1.2.6 — sshuttle VPN session manager
sshoot provides a command-line interface to manage multiple
sshuttle virtual private networks. It supports flexible profiles with configuration options for most of
sshpass 1.06 — Non-interactive password authentication with SSH
sshpass is a tool for non-interactivly performing password authentication with SSH's so-called interactive keyboard password authentication.
sshuttle 0.78.4 — VPN that transparently forwards connections over SSH
sshuttle creates an encrypted virtual private network (VPN) connection to any remote server to which you have secure shell (SSH) access. The only requirement is a suitable version of Python on the server; administrative privileges are required only on the client. Unlike most VPNs, sshuttle forwards entire sessions, not packets, using kernel transparent proxying. This makes it faster and more reliable than SSH's own tunneling and port forwarding features. It can forward both TCP and UDP traffic, including DNS domain name queries.
sslh 1.19c — Applicative network protocol demultiplexer
sslh is a network protocol demultiplexer. It acts like a switchboard, accepting connections from clients on one port and forwarding them to different servers based on the contents of the first received data packet. Detection of common protocols like HTTP(S), SSL, SSH, OpenVPN, tinc, and XMPP is already implemented, but any other protocol that matches a regular expression can be added. sslh's name comes from its original application of serving both SSH and HTTPS on port 443, allowing SSH connections from inside corporate firewalls that block port 22.
sssd 1.16.2 — System security services daemon
SSSD is a system daemon. Its primary function is to provide access to identity and authentication remote resource through a common framework that can provide caching and offline support to the system. It provides PAM and NSS modules, and in the future will support D-BUS based interfaces for extended user information. It also provides a better database to store local users as well as extended user data.
st 0.8.1 — Simple terminal emulator
St implements a simple and lightweight terminal emulator. It implements 256 colors, most VT10X escape sequences, utf8, X11 copy/paste, antialiased fonts (using fontconfig), fallback fonts, resizing, and line drawing.
stagit 0.7.2 — Static git page generator
Stagit creates static pages for git repositories, the results can be served with a HTTP file server of your choice.
stalin 0.11 — Brutally efficient Scheme compiler
Stalin is an aggressively optimizing whole-program compiler for Scheme that does polyvariant interprocedural flow analysis, flow-directed interprocedural escape analysis, flow-directed lightweight CPS conversion, flow-directed lightweight closure conversion, flow-directed interprocedural lifetime analysis, automatic in-lining, unboxing, and flow-directed program-specific and program-point-specific low-level representation selection and code generation.
- License: GPL 2+.
- Website: https://engineering.purdue.edu/~qobi/papers/fdlcc.pdf.
- Package source: scheme.scm.
- Patches: snippet.
- Lint issues: No.
- Builds: x86_64-linux.
stalonetray 0.8.3 — Standalone freedesktop.org and KDE systray implementation
Stalonetray is a stand-alone freedesktop.org and KDE system tray (notification area) for X Window System/X11 (e.g. X.Org or XFree86). It has full XEMBED support and minimal dependencies: an X11 lib only. Stalonetray works with virtually any EWMH-compliant window manager.
star 2.6.0c — Universal RNA-seq aligner
The Spliced Transcripts Alignment to a Reference (STAR) software is based on a previously undescribed RNA-seq alignment algorithm that uses sequential maximum mappable seed search in uncompressed suffix arrays followed by seed clustering and stitching procedure. In addition to unbiased de novo detection of canonical junctions, STAR can discover non-canonical splices and chimeric (fusion) transcripts, and is also capable of mapping full-length RNA sequences.
starfighter 1.7 — 2D scrolling shooter game
In the year 2579, the intergalactic weapons corporation, WEAPCO, has dominated the galaxy. Guide Chris Bainfield and his friend Sid Wilson on their quest to liberate the galaxy from the clutches of WEAPCO. Along the way, you will encounter new foes, make new allies, and assist local rebels in strikes against the evil corporation.
starman 0.4014 — PSGI/Plack web server
Starman is a PSGI perl web server that has unique features such as high performance, preforking, signal support, superdaemon awareness, and UNIX socket support.
startup-notification 0.12 — Application startup notification and feedback library
Startup-notification contains a reference implementation of the startup notification protocol. The reference implementation is mostly under an X Window System style license, and has no special dependencies.
static-binaries-tarball 0 — Statically-linked bootstrap binaries
Binaries used to bootstrap the distribution.
stb-image-for-extempore 0-1.152a250a7 — Image library for Extempore
This package is a collection of assorted single-file libraries. Of all included libraries only the image loading and decoding library is installed as
ste-plugins 0.0.2 — LADSPA stereo width plugin
This package provides a LADSPA plugin to manipulate the stereo width of audio signals.
steghide 0.5.1 — Image and audio steganography
Steghide is a program to hide data in various kinds of image and audio files (known as steganography). Neither color nor sample frequencies are changed, making the embedding resistant against first-order statistical tests.
stellarium 0.18.0 — 3D sky viewer
Stellarium is a planetarium. It shows a realistic sky in 3D, just like what you see with the naked eye, binoculars, or a telescope. It can be used to control telescopes over a serial port for tracking celestial objects.
stfl 0.24 — Structured terminal forms library
Stfl is a library which implements a curses-based widget set for text terminals.
stgit 0.18 — Stacked Git
StGit is a command-line application that provides functionality similar to Quilt (i.e., pushing/popping patches to/from a stack), but using Git instead of
patch. StGit stores its patches in a Git repository as normal Git commits, and provides a number of commands to manipulate them in various ways.
stow 2.2.2 — Managing installed software packages
This is a GNU package.
GNU Stow is a symlink manager. It generates symlinks to directories of data and makes them appear to be merged into the same directory. It is typically used for managing software packages installed from source, by letting you install them apart in distinct directories and then create symlinks to the files in a common directory such as /usr/local.
strace 4.23 — System call tracer for Linux
strace is a system call tracer, i.e. a debugging tool which prints out a trace of all the system calls made by a another process/program.
streamlink 0.13.0-1.2dca793 — Extract streams from various services
Streamlink is command-line utility that extracts streams from sites like Twitch.tv and pipes them into a video player of choice.
stress 1.0.4 — Impose load on and stress test a computer system
Stress is a tool that imposes a configurable amount of CPU, memory, I/O, or disk stress on a POSIX-compliant operating system and reports any errors it detects.
Stress is not a benchmark. It is a tool used by system administrators to evaluate how well their systems will scale, by kernel programmers to evaluate perceived performance characteristics, and by systems programmers to expose the classes of bugs which only or more frequently manifest themselves when the system is under heavy load.
stress-make 1.0-0.506e6cf — Expose race conditions in Makefiles
Stress Make is a customized GNU Make that explicitely manages the order in which concurrent jobs are run to provoke erroneous behavior into becoming manifest. It can run jobs in the order in which they're launched, in backwards order, or in random order. The thought is that if code builds correctly with Stress Make, then it is likely that the
Makefile contains no race conditions.
stringtie 1.2.1 — Transcript assembly and quantification for RNA-Seq data
StringTie is a fast and efficient assembler of RNA-Seq sequence alignments into potential transcripts. It uses a novel network flow algorithm as well as an optional de novo assembly step to assemble and quantitate full-length transcripts representing multiple splice variants for each gene locus. Its input can include not only the alignments of raw reads used by other transcript assemblers, but also alignments of longer sequences that have been assembled from those reads. To identify differentially expressed genes between experiments, StringTie's output can be processed either by the Cuffdiff or Ballgown programs.
strongswan 5.6.2 — IKEv1/v2 keying daemon
StrongSwan is an IPsec implementation originally based upon the FreeS/WAN project. It contains support for IKEv1, IKEv2, MOBIKE, IPv6, NAT-T and more.
stunnel 5.47 — TLS proxy for clients or servers
Stunnel is a proxy designed to add TLS encryption functionality to existing clients and servers without any changes in the programs' code. Its architecture is optimized for security, portability, and scalability (including load-balancing), making it suitable for large deployments.
subdl 1.0.3-1.4cf5789 — Command-line tool for downloading subtitles from opensubtitles.org
Subdl is a command-line tool for downloading subtitles from opensubtitles.org. By default, it will search for English subtitles, display the results, download the highest-rated result in the requested language and save it to the appropriate filename.
subread 1.6.0 — Tool kit for processing next-gen sequencing data
The subread package contains the following tools: subread aligner, a general-purpose read aligner; subjunc aligner: detecting exon-exon junctions and mapping RNA-seq reads; featureCounts: counting mapped reads for genomic features; exactSNP: a SNP caller that discovers SNPs by testing signals against local background noises.
subversion 1.10.0 — Revision control system
Subversion exists to be universally recognized and adopted as a centralized version control system characterized by its reliability as a safe haven for valuable data; the simplicity of its model and usage; and its ability to support the needs of a wide variety of users and projects, from individuals to large-scale enterprise operations.
sudo 1.8.23 — Run commands as root
Sudo (su "do") allows a system administrator to delegate authority to give certain users (or groups of users) the ability to run some (or all) commands as root or another user while providing an audit trail of the commands and their arguments.
suil 0.10.0 — Library for loading and wrapping LV2 plugin UIs
Suil is a lightweight C library for loading and wrapping LV2 plugin UIs.
Suil makes it possible to load a UI of a toolkit in a host using another toolkit. The API is designed such that hosts do not need to explicitly support specific toolkits – if Suil supports a particular toolkit, then UIs in that toolkit will work in all hosts that use Suil automatically.
Suil currently supports every combination of Gtk, Qt, and X11.
suitesparse 4.5.5 — Suite of sparse matrix software
SuiteSparse is a suite of sparse matrix algorithms, including: UMFPACK, multifrontal LU factorization; CHOLMOD, supernodal Cholesky; SPQR, multifrontal QR; KLU and BTF, sparse LU factorization, well-suited for circuit simulation; ordering methods (AMD, CAMD, COLAMD, and CCOLAMD); CSparse and CXSparse, a concise sparse Cholesky factorization package; and many other packages.
sunxi-tools 1.4.2 — Hardware management tools for Allwinner computers
This package contains tools for Allwinner devices:
fex2bin: Compile a textual description of a board (.fex) to a binary representation (.bin).
sunxi-fel: Puts an Allwinner device into FEL mode which makes it register as a special USB device (rather than USB host). You can then connect it to another computer and flash it from there.
sunxi-nand-part: Partitions NAND flash.
sunxi-bootinfo: Reads out boot0 and boot1 (Allwinner bootloader) parameters.
sunxi-pio: Sets GPIO parameters and oscillates a GPIO in order to be able to find it.
sunxi-meminfo: Prints memory bus settings.
sunxi-nand-image-builder: Prepares raw NAND images.
supercollider 3.9.2 — Synthesis engine and programming language
SuperCollider is a synthesis engine (
supernova) and programming language (
sclang). It can be used for experimenting with sound synthesis and algorithmic composition.
SuperCollider requires jackd to be installed in your user profile and your user must be allowed to access the realtime features of the kernel. Search for "realtime" in the index of the Guix manual to learn how to achieve this using GuixSD.
superlu 5.2.1 — Supernodal direct solver for sparse linear systems
SuperLU is a general purpose library for the direct solution of large, sparse, nonsymmetric systems of linear equations on high performance machines. The library is written in C and is callable from either C or Fortran. The library routines perform an LU decomposition with partial pivoting and triangular system solves through forward and back substitution. The library also provides threshold-based ILU factorization preconditioners.
superlu-dist 5.3.0 — Parallel supernodal direct solver
SuperLU_DIST is a parallel extension to the serial SuperLU library. It is targeted for distributed memory parallel machines. SuperLU_DIST is implemented in ANSI C, and MPI for communications.
supertux 0.5.1 — 2D platformer game
SuperTux is a free classic 2D jump'n run sidescroller game in a style similar to the original Super Mario games covered under the GNU GPL.
supertuxkart 0.9.3 — 3D kart racing game
SuperTuxKart is a 3D kart racing game, with a focus on having fun over realism. You can play with up to 4 friends on one PC, racing against each other or just trying to beat the computer; single-player mode is also available.
surf 2.0 — Simple web browser
Surf is a simple web browser based on WebKit/GTK+. It is able to display websites and follow links. It supports the XEmbed protocol which makes it possible to embed it in another application. Furthermore, one can point surf to another URI by setting its XProperties.
surfraw 2.2.9 — Unix command line interface to the www
Surfraw (Shell Users' Revolutionary Front Rage Against the Web) provides a unix command line interface to a variety of popular www search engines and similar services.
swaks 20170101.0 — Featureful SMTP test tool
Swaks is a flexible, scriptable, transaction-oriented SMTP test tool. It handles SMTP features and extensions such as TLS, authentication, and pipelining; multiple versions of the SMTP protocol including SMTP, ESMTP, and LMTP; and multiple transport methods including unix-domain sockets, internet-domain sockets, and pipes to spawned processes. Options can be specified in environment variables, configuration files, and the command line allowing maximum configurability and ease of use for operators and scripters.
swh-plugins-lv2 1.0.16 — SWH plugins in LV2 format
Swh-plugins-lv2 is a collection of audio plugins in LV2 format. Plugin classes include: dynamics (compressor, limiter), time (delay, chorus, flanger), ringmodulator, distortion, filters, pitchshift, oscillators, emulation (valve, tape), bit fiddling (decimator, pointer-cast), etc.
swig 3.0.12 — Interface compiler that connects C/C++ code to higher-level languages
SWIG is an interface compiler that connects programs written in C and C++ with languages such as Perl, Python, Ruby, Scheme, and Tcl. It works by taking the declarations found in C/C++ header files and using them to generate the wrapper code that scripting languages need to access the underlying C/C++ code. In addition, SWIG provides a variety of customization features that let you tailor the wrapping process to suit your application.
swish-e 2.4.7 — Web indexing system
Swish-e is Simple Web Indexing System for Humans - Enhanced. Swish-e can quickly and easily index directories of files or remote web sites and search the generated indexes.
sxhkd 0.5.9 — Simple X hotkey daemon
sxhkd is a simple X hotkey daemon with a powerful and compact configuration syntax.
sxiv 24 — Simple X Image Viewer
sxiv is an alternative to feh and qiv. Its primary goal is to provide the most basic features required for fast image viewing. It has vi key bindings and works nicely with tiling window managers. Its code base should be kept small and clean to make it easy for you to dig into it and customize it for your needs.
syncthing 0.14.48 — Decentralized continuous file system synchronization
Syncthing is a peer-to-peer file synchronization tool that supports a wide variety of computing platforms. It uses the Block Exchange Protocol.
synergy 1.8.8 — Mouse and keyboard sharing utility
Synergy brings your computers together in one cohesive experience; it's software for sharing one mouse and keyboard between multiple computers on your desk.
synfig 1.2.0 — Vector-based 2D animation renderer
Synfig is a vector-based 2D animation package. It is designed to be capable of producing feature-film quality animation. It eliminates the need for tweening, preventing the need to hand-draw each frame.
synfigstudio 1.2.0 — Vector-based 2D animation package (GUI)
Synfig is a vector-based 2D animation package. It is designed to be capable of producing feature-film quality animation. It eliminates the need for tweening, preventing the need to hand-draw each frame. This package contains the graphical user interface for synfig.
synthv1 0.9.0 — Polyphonic subtractive synthesizer
Synthv1 is an old-school subtractive polyphonic synthesizer with four oscillators and stereo effects.
sysfsutils 2.1.0 — System utilities based on Linux sysfs
These are a set of utilities built upon sysfs, a virtual file system in Linux kernel versions 2.5+ that exposes a system's device tree. The package also contains the libsysfs library.
sysfsutils 1.3.0 — System utilities based on Linux sysfs (version 1.x)
These are a set of utilities built upon sysfs, a virtual file system in Linux kernel versions 2.5+ that exposes a system's device tree. The package also contains the libsysfs library.
syslinux 6.04-pre-1.bb41e93 — Lightweight Linux bootloader
Syslinux is a lightweight Linux bootloader.
sysstat 11.4.3 — Performance monitoring tools for Linux
The sysstat utilities are a collection of performance monitoring tools for Linux. These include