_            _    _        _         _
      /\ \         /\ \ /\ \     /\_\      / /\
      \_\ \       /  \ \\ \ \   / / /     / /  \
      /\__ \     / /\ \ \\ \ \_/ / /     / / /\ \__
     / /_ \ \   / / /\ \ \\ \___/ /     / / /\ \___\
    / / /\ \ \ / / /  \ \_\\ \ \_/      \ \ \ \/___/
   / / /  \/_// / /   / / / \ \ \        \ \ \
  / / /      / / /   / / /   \ \ \   _    \ \ \
 / / /      / / /___/ / /     \ \ \ /_/\__/ / /
/_/ /      / / /____\/ /       \ \_\\ \/___/ /
\_\/       \/_________/         \/_/ \_____\/

Enter the query into the form above. You can look for specific version of a package by using @ symbol like this: gcc@10.

API method:

GET /api/packages?search=hello&page=1&limit=20

where search is your query, page is a page number and limit is a number of items on a single page. Pagination information (such as a number of pages and etc) is returned in response headers.

If you'd like to join our channel webring send a patch to ~whereiseveryone/toys@lists.sr.ht adding your channel as an entry in channels.scm.


python-modbedtools 0.1.6
Propagated dependencies: python-pysam@0.23.0
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://github.com/lidaof/modbedtools
Licenses: Expat
Build system: pyproject
Synopsis: Generate modbed track files for visualization on WashU Epigenome Browser
Description:

modbedtools is a python command line tool to generate modbed files for visualization on the WashU Epigenome Browser.

r-stringendo 0.6.0-1.15594b1
Propagated dependencies: r-clipr@0.8.0
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://github.com/vertesy/Stringendo
Licenses: GPL 3
Build system: r
Synopsis: Stringendo is a string parsing library
Description:

This package provides string parsing functionalities for generating plotnames, filenames and paths.

smithlab-cpp 0.1.728a097
Dependencies: samtools@0.1.19 zlib@1.3.1
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://github.com/smithlabcode/smithlab_cpp
Licenses: GPL 3+
Build system: gnu
Synopsis: C++ helper library for functions used in Smith lab projects
Description:

Smithlab CPP is a C++ library that includes functions used in many of the Smith lab bioinformatics projects, such as a wrapper around Samtools data structures, classes for genomic regions, mapped sequencing reads, etc.

python-genomepy 0.15.0
Propagated dependencies: python-appdirs@1.4.4 python-biopython@1.85 python-click@8.1.8 python-colorama@0.4.6 python-diskcache@5.6.3 python-filelock@3.16.1 python-loguru@0.7.2 python-mygene@3.2.2 python-mysql-connector-python@8.0.33 python-norns@0.1.6 python-numpy@1.26.4 python-pandas@2.2.3 python-pyfaidx@0.7.2.1 python-requests@2.32.5 python-tqdm@4.67.1
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://vanheeringen-lab.github.io/genomepy/
Licenses: Expat
Build system: pyproject
Synopsis: Genes and genomes at your fingertips
Description:

genomepy is designed to provide a simple and straightforward way to download and use genomic data. This includes

  1. searching available data,

  2. showing the available metadata,

  3. automatically downloading, preprocessing and matching data, and

  4. generating optional aligner indexes.

All with sensible, yet controllable defaults.

python-hclust2 1.0.0
Propagated dependencies: python-matplotlib@3.8.2 python-numpy@1.26.4 python-pandas@2.2.3 python-scipy@1.12.0
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://github.com/SegataLab/hclust2/
Licenses: Expat
Build system: pyproject
Synopsis: Plotting heat-maps for publications
Description:

Hclust2 is a handy tool for plotting heat-maps with several useful options to produce high quality figures that can be used in publications.

idr 2.0.3
Propagated dependencies: python-scipy@1.12.0 python-sympy@1.13.3 python-numpy@1.26.4 python-matplotlib@3.8.2
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://github.com/nboley/idr
Licenses: GPL 2+
Build system: pyproject
Synopsis: Tool to measure the irreproducible discovery rate (IDR)
Description:

The IDR (Irreproducible Discovery Rate) framework is a unified approach to measure the reproducibility of findings identified from replicate experiments and provide highly stable thresholds based on reproducibility.

python-genomic-regions 0.0.10
Propagated dependencies: python-future@1.0.0 python-intervaltree@3.1.0 python-numpy@1.26.4 python-pandas@2.2.3 python-pybedtools@0.10.0 python-pybigwig@0.3.22 python-pytest@8.4.1 python-msgpack-numpy@0.4.8 python-cython@3.1.2 python-msgpack@1.1.1 python-pysam@0.23.0
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://pypi.org/project/genomic-regions/
Licenses: Expat
Build system: pyproject
Synopsis: Consistently handle genomic regions
Description:

This package aims to simplify working with genomic region / interval data by providing a common interface that lets you access a wide selection of file types and formats for handling genomic region data---all using the same syntax.

python-pyani 0.2.12
Propagated dependencies: python-biopython@1.85 python-matplotlib@3.8.2 python-pandas@2.2.3 python-scipy@1.12.0 python-seaborn@0.13.2
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://widdowquinn.github.io/pyani/
Licenses: Expat
Build system: pyproject
Synopsis: Calculate genome-scale average nucleotide identity
Description:

Pyani provides a package and script for calculation of genome-scale average nucleotide identity.

express 1.5.3
Dependencies: boost@1.83.0 bamtools@2.5.2 protobuf@3.21.9 zlib@1.3.1
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: http://bio.math.berkeley.edu/eXpress
Licenses: Artistic License 2.0
Build system: cmake
Synopsis: Streaming quantification for high-throughput genomic sequencing
Description:

eXpress is a streaming tool for quantifying the abundances of a set of target sequences from sampled subsequences. Example applications include transcript-level RNA-Seq quantification, allele-specific/haplotype expression analysis (from RNA-Seq), transcription factor binding quantification in ChIP-Seq, and analysis of metagenomic data.

python-pyliftover 0.4
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://github.com/konstantint/pyliftover
Licenses: Expat
Build system: pyproject
Synopsis: Python implementation of UCSC liftOver genome coordinate conversion
Description:

PyLiftover is a library for quick and easy conversion of genomic (point) coordinates between different assemblies.

r-hdwgcna 0.4.00-1.950b8c7
Propagated dependencies: r-dplyr@1.1.4 r-enrichr@3.4 r-geneoverlap@1.46.0 r-genomicranges@1.62.0 r-ggplot2@4.0.1 r-ggraph@2.2.2 r-ggrepel@0.9.6 r-harmony@1.2.4 r-igraph@2.2.1 r-matrix@1.7-4 r-proxy@0.4-27 r-seurat@5.3.1 r-tester@0.3.0 r-tidygraph@1.3.1 r-ucell@2.14.0 r-wgcna@1.73
Channel: guix
Location: gnu/packages/bioinformatics.scm (gnu packages bioinformatics)
Home page: https://github.com/smorabit/hdWGCNA
Licenses: GPL 3
Build system: r
Synopsis: Weighted gene co-expression network analysis
Description:

hdWGCNA is an R package for performing weighted gene co-expression network analysis in high dimensional -omics such as single-cell RNA-seq or spatial transcriptomics.

bison 3.8.2
Dependencies: flex@2.6.4
Propagated dependencies: m4@1.4.19
Channel: guix
Location: gnu/packages/bison.scm (gnu packages bison)
Home page: https://www.gnu.org/software/bison/
Licenses: GPL 3+
Build system: gnu
Synopsis: Yacc-compatible parser generator
Description:

GNU Bison is a general-purpose parser generator. It can build a deterministic or generalized LR parser from an annotated, context-free grammar. It is versatile enough to have many applications, from parsers for simple tools through complex programming languages.

Bison also provides an implementation of yacc, as specified by POSIX.

bison 3.0.5
Dependencies: flex@2.6.4
Propagated dependencies: m4@1.4.19
Channel: guix
Location: gnu/packages/bison.scm (gnu packages bison)
Home page: https://www.gnu.org/software/bison/
Licenses: GPL 3+
Build system: gnu
Synopsis: Yacc-compatible parser generator
Description:

GNU Bison is a general-purpose parser generator. It can build a deterministic or generalized LR parser from an annotated, context-free grammar. It is versatile enough to have many applications, from parsers for simple tools through complex programming languages.

Bison also provides an implementation of yacc, as specified by POSIX.

stig 0.14.1a0
Dependencies: python@3.11.14
Propagated dependencies: python-urwid@3.0.3 python-urwidtrees@1.0.4 python-aiohttp@3.11.11 python-aiohttp-socks@0.10.1 python-pyxdg@0.28 python-blinker@1.9.0 python-natsort@8.4.0 python-async-timeout@5.0.1 python-setproctitle@1.3.7
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://github.com/rndusr/stig
Licenses: GPL 3
Build system: pyproject
Synopsis: TUI and CLI for the BitTorrent client Transmission
Description:

Stig is a TUI and CLI client for the BitTorrent client Transmission.

aria2 1.37.0
Dependencies: c-ares@1.34.4 gnutls@3.8.3 gmp@6.3.0 libssh2@1.10.0 libxml2@2.14.6 nettle@3.10.1 sqlite@3.39.3 wslay@1.1.1 zlib@1.3.1
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://aria2.github.io/
Licenses: GPL 2+
Build system: gnu
Synopsis: Utility for parallel downloading files
Description:

Aria2 is a lightweight, multi-protocol & multi-source command-line download utility. It supports HTTP/HTTPS, FTP, SFTP, BitTorrent and Metalink. Aria2 can be manipulated via built-in JSON-RPC and XML-RPC interfaces.

libtorrent-rasterbar 2.0.11
Dependencies: boost@1.83.0 openssl@3.0.8
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://www.libtorrent.org/
Licenses: FreeBSD
Build system: cmake
Synopsis: Feature-complete BitTorrent implementation
Description:

libtorrent-rasterbar is a feature-complete C++ BitTorrent implementation focusing on efficiency and scalability. It runs on embedded devices as well as desktops.

mktorrent 1.1
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://github.com/Rudde/mktorrent
Licenses: Public Domain GPL 2+
Build system: gnu
Synopsis: Utility to create BitTorrent metainfo files
Description:

mktorrent is a simple command-line utility to create BitTorrent metainfo files, often known simply as torrents, from both single files and whole directories. It can add multiple trackers and web seed URLs, and set the private flag to disallow advertisement through the distributed hash table (DHT) and Peer Exchange. Hashing is multi-threaded and will take advantage of multiple processor cores where possible.

qbittorrent-no-x 5.1.2
Dependencies: boost@1.89.0 libtorrent-rasterbar@2.0.11 openssl@3.0.8 python-wrapper@3.11.14 zlib@1.3.1
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://www.qbittorrent.org/
Licenses: GPL 2+
Build system: qt
Synopsis: Graphical BitTorrent client
Description:

qBittorrent is a BitTorrent client programmed in C++/Qt that uses libtorrent (sometimes called libtorrent-rasterbar) by Arvid Norberg.

It aims to be a good alternative to all other BitTorrent clients out there. qBittorrent is fast, stable and provides unicode support as well as many features.

transmission-remote-gtk 1.6.0
Dependencies: gtk+@3.24.51 json-glib@1.10.0 libappindicator@12.10.1-0-298 libsoup@3.6.4
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://github.com/transmission-remote-gtk/transmission-remote-gtk
Licenses: GPL 2+
Build system: meson
Synopsis: Gtk frontend to the Transmission daemon
Description:

transmission-remote-gtk is a GTK client for remote management of the Transmission BitTorrent client, using its HTTP RPC protocol.

rtorrent 0.16.1
Dependencies: libtorrent@0.16.1 ncurses@6.2.20210619 curl@8.6.0 cyrus-sasl@2.1.28 openssl@3.0.8 zlib@1.3.1
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://github.com/rakshasa/rtorrent
Licenses: GPL 2+
Build system: gnu
Synopsis: BitTorrent client with ncurses interface
Description:

rTorrent is a BitTorrent client with an ncurses interface. It supports full encryption, DHT, PEX, and Magnet Links. It can also be controlled via XML-RPC over SCGI.

libtorrent-rasterbar 1.2.20
Dependencies: boost@1.83.0 openssl@3.0.8
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://www.libtorrent.org/
Licenses: FreeBSD
Build system: cmake
Synopsis: Feature-complete BitTorrent implementation
Description:

libtorrent-rasterbar is a feature-complete C++ BitTorrent implementation focusing on efficiency and scalability. It runs on embedded devices as well as desktops.

qbittorrent-enhanced 5.1.2.10
Dependencies: boost@1.89.0 libtorrent-rasterbar@2.0.11 openssl@3.0.8 python-wrapper@3.11.14 qtsvg@6.9.2 zlib@1.3.1
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://github.com/c0re100/qBittorrent-Enhanced-Edition
Licenses: GPL 2+
Build system: qt
Synopsis: Graphical BitTorrent client
Description:

qBittorrent Enhanced is a bittorrent client based on qBittorrent with the following features:

  • Auto Ban Xunlei, QQ, Baidu, Xfplay, DLBT and Offline downloader

  • Auto Ban Unknown Peer from China Option (Default: OFF)

  • Auto Update Public Trackers List (Default: OFF)

  • Auto Ban BitTorrent Media Player Peer Option (Default: OFF)

  • Peer whitelist/blacklist

libtorrent 0.16.1
Dependencies: curl@8.6.0 openssl@3.0.8 zlib@1.3.1
Channel: guix
Location: gnu/packages/bittorrent.scm (gnu packages bittorrent)
Home page: https://github.com/rakshasa/libtorrent
Licenses: GPL 2+
Build system: gnu
Synopsis: BitTorrent library of rtorrent
Description:

LibTorrent is a BitTorrent library used by and developed in parallel with the BitTorrent client rtorrent. It is written in C++ with emphasis on speed and efficiency.

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Total results: 68655