BOL: Related items

HASLR: a tool for rapid genome assembly of long sequencing reads

LEGE — Fri, 31 Jan 2020 05:50:15 -0600

HASLR is a tool for rapid genome assembly of long sequencing reads. HASLR is a hybrid tool which means it requires long reads generated by Third Generation Sequencing technologies (such as PacBio or Oxford Nanopore) together with Next Generation Sequencing reads (such as Illumina) from the same sample.

Address of the bookmark: https://github.com/vpc-ccg/haslr

GSP4PDB: a web tool to visualize, search and explore protein-ligand structural patterns

Neel — Sun, 15 Mar 2020 03:41:12 -0500

GSP4PDB is a user-friendly and efficient application to search and discover new patterns of protein-ligand interaction.

GSP4PDB is part of the services provided by the Bioinformatic Group of the University of Talca

http://gdblab.com/gsp4pdb/gsp4pdb2/

https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-020-3352-x

Address of the bookmark: http://gdblab.com/gsp4pdb/gsp4pdb2/

Liftoff: an accurate tool that maps annotations in GFF or GTF between assemblies

Jit — Tue, 30 Jun 2020 21:40:52 -0500

Liftoff, an accurate tool that maps annotations in GFF or GTF between assemblies of the same, or closely-related species. Unlike current coordinate lift-over tools which require a pre-generated “chain” file as input, Liftoff is a standalone tool that takes two genome assemblies and a reference annotation as input and outputs an annotation of the target genome.

Address of the bookmark: https://github.com/agshumate/Liftoff

Clustergrammer is a web-based tool for visualizing high-dimensional data as an interactive and shareable hierarchically clustered heatmap

BioStar — Sun, 23 Aug 2020 19:30:17 -0500

Clustergrammer is a web-based tool for visualizing high-dimensional data (e.g. a matrix) as an interactive and shareable hierarchically clustered heatmap. Clustergrammer's front end (Clustergrammer-JS) is built using D3.js and its back-end (Clustergrammer-PY) is built using Python. Clustergrammer produces highly interactive visualizations that enable intuitive exploration of high-dimensional data and has several biology-specific features (e.g. enrichment analysis, see Biology-Specific Features) to facilitate the exploration of gene-level biological data.

Address of the bookmark: https://github.com/MaayanLab/clustergrammer

LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data

Neel — Wed, 23 Jun 2021 07:54:53 -0500

LoReTTA (Long Read Template-Targeted Assembler), a tool designed for performing de novo assembly of long reads generated from viral genomes on the PacBio platform. LoReTTA exploits a reference genome to guide the assembly process, an approach that has been successful with short reads.

https://academic.oup.com/ve/article/7/1/veab042/6248116

Address of the bookmark: https://academic.oup.com/ve/article/7/1/veab042/6248116

GenomeQC: a quality assessment tool for genome assemblies and gene structure annotations

Neel — Thu, 19 May 2022 04:29:05 -0500

The GenomeQC web application is implemented in R/Shiny version 1.5.9 and Python 3.6 and is freely available at https://genomeqc.maizegdb.org/ under the GPL license. All source code and a containerized version of the GenomeQC pipeline is available in the GitHub repository https://github.com/HuffordLab/GenomeQC.

https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-020-6568-2

Address of the bookmark: https://github.com/HuffordLab/GenomeQC

Minda: a tool for evaluating structural variant (SV) callers

LEGE — Sun, 31 Mar 2024 02:43:50 -0500

Minda is a tool for evaluating structural variant (SV) callers that

standardizes VCF records for compatibility with both germline and somatic SV callers,
benchmarks against a single VCF input file, or
benchmarks against an ensemble call set created from multiple VCF input files.

Address of the bookmark: https://github.com/KolmogorovLab/minda

LoVis4u: Locus Visualisation tool for comparative genomics

LEGE — Tue, 17 Sep 2024 02:30:57 -0500

Description

LoVis4u is a bioinformatics tool for Loci Visualisation.

LoVis4u, a command-line tool and Python API designed for highly customizable and fast visualisation of multiple genomic loci. LoVis4u generates vector images in PDF format based on annotation data from GenBank or GFF files. It is capable of visualising entire genomes of bacteriophages as well as plasmids and user-defined regions of longer prokaryotic genomes. Additionally, LoVis4u offers optional data processing steps to identify and highlight accessory and core genes in input sequences.

https://art-egorov.github.io/lovis4u/

Address of the bookmark: https://github.com/art-egorov/lovis4u

CONCOCT: Clustering cONtigs with COverage and ComposiTion

Jit — Mon, 06 Mar 2017 04:08:16 -0600

A program for unsupervised binning of metagenomic contigs by using nucleotide composition, coverage data in multiple samples and linkage data from paired end reads.

Warning! This software is to be considered under development. Functionality and the user interface may still change significantly from one version to another. If you want to use this software, please stay up to date with the list of known issues:https://github.com/BinPro/CONCOCT/issues

Address of the bookmark: https://github.com/BinPro/CONCOCT

Awesome perl frameworks, libraries and software - PART 4

Neel — Fri, 07 Jul 2017 04:11:54 -0500

tjstein/php5-fpm-munin-plugins - A set of Munin plugins for PHP5-FPM
perusio/nginx-munin - A set of plugins for monitoring nginx with Munin
openresty/lua-resty-memcached - Lua memcached client driver for the ngx_lua based on the cosocket API
jayjanssen/myq_gadgets - Various iostat style scripts for MySQL
apt-mirror/apt-mirror - Official apt-mirror source.
kentaro/cinnamon - a simple deploy tool
mdom/dategrep - print lines matching a date range
kazuho/jailing - super-easy chroot jail builder/runner for Linux
teleshoes/tpacpi-bat - ThinkPad ACPI Battery Util
hechtus/squeezebox-googlemusic - Squeezebox (Logitech Media Server) Plugin for Google Play Music
hexchat/hexchat-addons - Plugins and scripts made for HexChat
berekuk/Ubic - Polymorphic service manager.
deryckoe/Wordpress-Syntax-Mode-for-Coda-2 - Wordpress Syntax Mode working on Coda 2.0.2
squentin/gmusicbrowser - jukebox for large collections of music
autodl-community/autodl-irssi - A community-driven fork of autodl-irssi
yoshiki/markdown2impress - markdown2impress is script to convert markdown into presentation using impress.js.
pagespeed/cpanel - mod_pagespeed module for CPanel WHM
liyanage/xcode-text-macros - Some XCode text macros plus a macro overview HTML page generator
erlang/eep - Erlang Enhancement ProposalS
Koha-Community/Koha - Koha is a free software integrated library system (ILS). Koha is distributed under the GNU GPL version 3 or later. Note: this is a synced mirror of the official Koha repo.
vti/bootylicious - LIghtweight blog engine on Mojo steroids!
tokuhirom/Furl - pretty fast http client library for perl5
miyagawa/Carmel - CPAN Artifact Repository Manager
combinatorylogic/clike - A simple C-like language compiler with an extensible syntax and typed macros support
cloudflare/CloudFlare-Tools - Tools which enable you to get the full benefit of using the CloudFlare service.
untoldwind/alfred2-layout - Alfred 2 Layout workflow
nothingmuch/kiokudb - KiokuDB Core
katzgrau/chip - A log file multiplexer and monitor. Tail multiple remote or local log files, set actions, and more. A friend to every developer and system admin. Alpha.
SethRobertson/git-what-branch - Discover what branch a commit is on, or how it got to a named branch
shabble/irssi-docs - In-depth documentation of the Irssi IRC Client
kappa/yadisk-sync - Linux syncronizer for Yandex.Disk
dotse/dnscheck - DNSCheck code, DNS delegation quality checker.
darold/pgcluu - PostgreSQL Cluster performances monitoring and auditing tool
cfengine/design-center - CFEngine community-contributed content
bestpractical/sd - A distributed issue tracker; upstream is now http://gitorious.org/prophet
masak/proto - A a hyper-lightweight dependency tracking and project installation system
liblime/LibLime-Koha - LibLime Koha is the most mature of the open source ILS applications. Based on the ground-breaking 3.0 platform (derived from the original Koha offering of 1999), LibLime Koha is a completely web-based open source ILS, with library staff, systems librarians, and library users all accessing LibLime Koha through a web browser. Relying on the MySQL relational database, all LibLime Koha data is readily accessible.
ingydotnet/... - Dot Dot Dot
gusmaskowitz/apachebuddy.pl - Not written by me, maintained by me : Apachebuddy.pl
zaf/asterisk-googletts - Asterisk AGI script that uses Google's translate text to speech service.
openresty/lua-resty-core - New FFI-based API for lua-nginx-module
openSUSE/kiwi - KIWI OS Image builder
FastVPSEestiOu/Antidoto - Linux antimalware and antirootkit tool
sorin-ionescu/dotfiles - My command line life.
oetiker/smokeping-3.x - reengineered SmokePing, using Extopus as its frontend
nekokak/p5-Teng - simple DBI wrapper/ORMapper
faiproject/fai - non-interactive system to install, customize and manage Linux systems
abh/ntppool - NTP Pool Project
willixix/naglio-plugins - Monitoring Plugins by William Leibzon
stealth/troubleshooter - setroubleshootd xSports
openresty/lua-resty-string - String utilities and common hash functions for ngx_lua and LuaJIT
mdxp/cookbooks - My custom Cookbooks for Chef
ingydotnet/vroom-pm - Vim Based Slideshow Presentations
iamcal/Flickr-StatsD - Mirror of code.flickr.com: Flickr-StatsD
ernstsson/Arqua - Architectural quality analysis tool for GCC project
qiaoxueshi/FLEXLoader - A jailbreak iOS device tweak which can load FLEX dynamiclly
punchdrunker/iOSEmoji - information about unicode6 emoji used in iOS5
openresty/replace-filter-nginx-module - Streaming regular expression replacement in response bodies
djabberd/DJabberd - The main DJabberd source
darold/pgFormatter - A PostgreSQL SQL syntax beautifier that can work as a console program or as a CGI. Download from https://sourceforge.net/p/pgformatter/ and demo site at http://sqlformat.darold.net/
aspiers/mysqldiff - tool and CPAN suite backend for comparing MySQL database schemas
michaeldexter/vmrc - Virtual Machine rc script
keydet89/RegRipper2.8 - RegRipper version 2.8
kazuho/kaztools - shellscripts and utilities for myself
gknops/adHocGenerate - Wireless ad hoc distribution of iOS applications
book/Act - A Conference Toolkit (Git conversion of the Subversion repository)
turingou/docor - a smart and tiny README maker using default manifest package.json
rjbs/Soviet-Minecraft - a gross hack for chatty control of Minecraft
osklil/hls-fetch - Download and decrypt videos served by the HTTP Live Streaming (HLS) protocol.
alestic/ec2-expire-snapshots - Delete expired EBS snapshots in Amazon EC2. Install on Ubuntu with: sudo add-apt-repository -y ppa:alestic && sudo apt-get update && sudo apt-get install -y ec2-expire-snapshots
rpetrich/objc_api_visibility - Private API checker for iOS. Requires class-dump-z to be in the PATH
mojombo/gollum-demo - Gollum test repo
mikecardwell/gpgit - Encrypt Email using GnuPG and a pipe
lxctl/lxctl - vzctl like utilities for lxc
justone/dfm - dotfiles manager
miyagawa/cpanfile - Yet another way to declare CPAN dependencies
imatix/gitdown - Turn github into your publishing platform
grayhemp/pgtoolkit - Tools for PostgreSQL maintenance
domm/App-TimeTracker - distributed timetracking from the commandline
xaicron/mysqlenv - mysql binary manager
tagomoris/fluent-agent-lite - Lightweight log delivery agent works w/ fluentd
openresty/lua-resty-upstream-healthcheck - Health Checker for Nginx Upstream Servers in Pure Lua
niXman/mingw-builds - Scripts for building the dual-target(32 & 64 bit) MinGW-W64 compilers for 32 and 64 bit Windows
lvc/abi-compliance-checker - A tool for checking backward API/ABI compatibility of a C/C++ library
chilts/cil - DVCS backed issue tracking system
TooTallNate/node-cgi - An http/stack/connect layer to invoke and serve CGI executables.
CityGenerator/CityGenerator - CityGenerator is a tool for generating a setting for Fantasy Roleplaying games.
yoshinorim/mha4mysql-node - Development tree of Master High Availability Manager and tools for MySQL (MHA), Node (MySQL Server) part
Netflix-Skunkworks/jenkins-cli - Simple Jenkins Command Line Interface
vrtadmin/clamav-faq - ClamAV FAQ
ssinyagin/gerty - A universal framework for device management automation. Eventually a replacement for RANCID... and much more
quran/quran.com-images - images using fonts from King Fahed Complex / qurancomplex.com
matschaffer/profile - My Bash profile
jigish/dotfiles - My configs
darold/ora2pg - Ora2Pg is a free tool used to migrate an Oracle database to a PostgreSQL compatible schema. It connects your Oracle database, scan it automaticaly and extracts its structure or data, it then generates SQL scripts that you can load into PostgreSQL.
castaway/dbix-class-book - DBIx::Class book
brucemiller/LaTeXML - LaTeXML is a TeX and LaTeX to XML translator.
OpenDDRdotORG/OpenDDR-Resources - OpenDDR resources
revmischa/rtsp-server - Lightweight RTSP/RTP streaming media server
oetiker/znapzend - zfs backup with remote capabilities and mbuffer integration.
cardinal/cardinal - Cardinal - Ruby compiler for Parrot
LibreCat/Catmandu - https://metacpan.org/pod/Catmandu
rdvn/zabbix-templates - Various Zabbix templates
mischat/shareNice - An ethical way of adding social sharing features to your website, without compromising your users' privacy by dropping tracking cookies on them.
kayac/isucon3 - ISUCON3
coryarcangel/Pizza-Party-0.1.b - Order pizza over the commandline (circa 2004)
msparks/irssiscripts - Scripts for the Irssi IRC client
mogui/MDWamp - MDWamp is a client side objective-C implementation of the WebSocket subprotocol WAMP.
michaeljamesfitzgerald/Introducing-Regular-Expressions - Example code and target text files for the O'Reilly book Introducing Regular Expressions
jeffreykegler/Marpa--R2 - Parse any language you can describe in BNF -- Release 2
glensc/nagios-plugin-check_raid - Nagios/Icinga plugin to check current server's RAID status
futuretap/iTunesFeaturedCheck - Scrapes the App Store and finds out whether an app is featured on either the App Store homepage or in a specific category
yepher/RaZBerry - Notes About ZWave and RazBerry
tokuhirom/Minilla - Authorizing tool for CPAN modules
rgeissert/http-redirector - Debian mirrors HTTP redirector
oetiker/rrdtool-2.x - RRDtool 2.x - The Time Series Database
mindreframer/nginx-lua-stuff - some libs for NginX-Lua integration
crowbar/barclamp-nagios - [UNMAINTAINED] Crowbar Nagios: System Monitoring
andk/cpanpm - CPAN.pm
moritz/ilbot - IRC logging bot and web frontend
meso-cacase/difff - Webベースのテキスト比較ツール difff《ﾃﾞｭﾌﾌ》
elliotchance/mbzdb - Port of the MusicBrainz database to run on other RDBMSs with replication (previously named MB_MySQL.)
trapd00r/vidir - edit directory in $EDITOR (better than vim . with netrw)
evalEmpire/gitpan - Git repositories for all of CPAN
pagekite/Colormake - A simple wrapper around make to colorize the output.
manuelkasper/AS-Stats - A simple tool to generate per-AS traffic graphs from NetFlow/sFlow records
kazeburo/Monoceros - PSGI/Plack server with event driven connection manager, preforking workers
justintime/nagios-plugins - Collection of some handy Nagios plugins
justingit/dada-mail - Dada Mail is a simple, web-based mailing list manager. It totally rules.
grantm/bcvi - Back-channel vi
JeremyJones/Apachetop - apachetop is a console-based tool for monitoring the threads and overall performance of a set of Apache web servers.
garu/tweetylicious - a Twitter-like microblogging app in just one file
doujiang24/lua-resty-kafka - Lua kafka client driver for the ngx_lua based on the cosocket API
HikariKnight/rsu-client - A git repository for the RuneScape Linux/Unix Client Project
wimpunk/ddclient - Fork of the original ddclient code
tokuhirom/tora - Tora! Tora! Tora!
stepb/urxvt-tabbedex - Tabbed plugin for rxvt-unicode with many enhancements
rafl/moosex-declare - Declarative syntax for Moose
pobox/Moonpig - the moonpig billing system
fink/fink - The fink package manager
theiostream/theos-ref - Theos Docs! (because there never was a chapter 2)
robinbowes/flac2mp3 - flac2mp3 is a tool to convert audio files from flac to mp3 format including the copying of tags.
rayman813/coda2-mode-wordpress - Wordpress Syntax Mode/Highlight/Autocomplete for Coda 2
hackman/linux-sysadmin-course - Linux System Administration 101
deepakdaswani/whatsapp_discover - "Whatsapp Discover" is a tool for getting phone numbers of devices using Whatsapp by real time sniffing from an interface (disabled in this first version) or from a list of pcap files, which can be processed in batch
calio/form-input-nginx-module - This is a nginx module that reads HTTP POST and PUT request body encoded in "application/x-www-form-urlencoded", and parse the arguments in request body into nginx variables.
bloonix/awesant - Awesant is a log shipper for logstash.
AndriiGrytsenko/openssh-ldap-publickey - Wrapper for OpenSSH to store public keys inside the OpenLDAP entry.
nikyoudale/symbolicatecrash-mac - A version of the symbolicatecrash script that works for Mac app crash logs
mhwest13/Memcached-Munin-Plugin - Memcached Munin Plugins
knmnyn/ParsCit - An open-source CRF Reference String Parsing Package
c9s/App-gh - GitHub Command-line Utility.
bradfitz/shipit - Software Release Tool
sukria/WebKeePass - Web interface over a KeePass database
naturalist/kelp - A web framework light, yet rich in nutrients.
kirei/catt - Certification Authority Trust Tracker
kazuho/Starlet - a Plack Server, formerly known as Plack::Server::Standalone::Prefork::Server::Starter
dolmen/github-keygen - Easy creation of secure SSH configuration for your Github account(s)
bigplum/nginx-tcp-lua-module - A TCP server with lua supporting based on nginx
baohaojun/ajoke - Abducting Java Onto Emacs, K is silent.
apache/spamassassin - Read-only mirror of Apache SpamAssassin. Submit patches to https://bz.apache.org/SpamAssassin/. Do not send pull requests
tsee/Games-Lacuna-Client - A client for the Lacuna Expanse
sitaramc/gitpod - local caching server for git when the actual server is on the other side of a (possibly slow) WAN link
mjdominus/git-util - Miscellaneous git scripts and utilities
kevina/wordlist - SCOWL (and friends).
franckcuny/jitterbug - Cross Language Continuous Integration for Git
fastmail/towncrier - A status dashboard
collectiveintel/cif-v1 - the fastest way to consume threat intelligence.
anestisb/WeBaCoo - Web Backdoor Cookie Script-Kit
Tarrasch/zsh-autoenv - Autoenv for zsh
xme/hoover - Wireless Probe Requests Sniffer
spencertipping/caterwaul - A Javascript-to-Javascript compiler
openresty/lua-redis-parser - Lua module for parsing raw redis responses
mpeters/smolder - Web-based Continuous Integration Smoke Server
madscientist/msjnc - MadScientist Juniper Network Connect Session Manager
kfdm/irssi-growl - Growl notification script for irssi
jimsalterjrs/sanoid - Policy-driven snapshot management and replication tools. Currently using ZFS for underlying next-gen storage, with explicit plans to support btrfs when btrfs becomes more reliable. Primarily intended for Linux, but BSD use is supported and reasonably frequently tested.
duritong/puppet-nagios - a nagios module for puppet
szabgab/screencasts - The translated captions of my screencasts
openresty/resty-cli - Fancy command-line utilities for OpenResty
kre/Kinetic-Rules-Engine - Source code for KRE
helloandre/cr48 - my programs that i've put on cr48
csirtgadgets/massive-octo-spice - the fastest way to consume threat intelligence
agentzh/sshbatch - SSH::Batch for cluster operations
SPORE/api-description - SPORE description for API
xilinus/prototypeui - Prototype UI
tagomoris/isucon - isucon web applications and tools
perl6/doc - Perl 6 documentation (tools and docs)
hirose31/redis-traffic-stats - Redis query analyzer for counting, traffic stats by command
gjreda/pydata2014nyc - Materials for my pandas tutorial at PyData 2014, NYC
genaev/vmd - vkontakte music downloader
dalibo/sqlserver2pgsql - Migration tool to convert a Microsoft SQL Server Database into a PostgreSQL database, as automatically as possible
symkat/Stalker - Records and correlates nick!user@host information
lvc/japi-compliance-checker - A tool for checking backward API/ABI compatibility of a Java library
justinabrahms/jlilly-bashy-dotfiles - This is a collection of my dotfiles not related to either vim or emacs. Mostly just bashy stuff.
interchange/interchange - Interchange
ingydotnet/jemplate - Industrial strength JavaScript template framework
depesz/explain.depesz.com - Webpage for showing easier to read version of PostgreSQL explains
Webconverger/webc - Webconverger's curated chroot from which updates originate
SSLMate/sslmate - The SSLMate Client - Buy and Manage SSL Certs from the Command Line
stayradiated/dotfiles - Just my configs for CRUX and OS X
openresty/lua-resty-lock - Simple nonblocking lock API for ngx_lua based on shared memory dictionaries
nickspacek/Net-Google-Tasks - Interface to Google Tasks
jdavis/dotfiles - Config files for various things
evadne/LESS.mode - LESS syntax mode for SubEthaEdit and Coda
dotse/zonemaster - The Zonemaster Project
darold/squidanalyzer - Squid Analyzer parses Squid proxy access log and reports general statistics about hits, bytes, users, networks, top URLs, and top second level domains. Statistic reports are oriented toward user and bandwidth control.
vti/showmetheshell - HTML5 WebSocket Shell
oalders/http-browserdetect - Determine the Web browser, version, and platform from an HTTP user agent string
marksteele/collectd-plugins - Collectd Plugins
kristofg/rifec - Receive Images From Eye-Fi Cards
kirei/fpdns - Net::DNS::Fingerprint
gjospin/PhyloSift - Phylogenetic and taxonomic analysis for genomes and metagenomes
chrispix/symbolicatecrash-fix - A patch of Apple's symbolicatecrash script, broken in XCode4
billkarwin/bk-tools - Scripts I wrote to help using MySQL and Percona products.
adelton/docker-freeipa - FreeIPA server and client in Docker containers; see hub.docker.com for the images:
OWASP/O-Saft - O-Saft - OWASP SSL audit for testers
yllan/moedict-mac - 轉換教育部國語辭典為 Mac 內建字典
tokuhirom/cpan-outdated - detect outdated CPAN modules
openwebwork/webwork2 - Course management front end for WeBWorK
nicolaspanel/libsvm.net - An easy way to use Support Vector Machines in your .NET projects (c# code)
jodrell/unbound-block-hosts - a script to convert Dan Pollock's ad blocking hosts file into Unbound local-data.
davepacheco/jsstyle - cstyle-based JavaScript style checker
cloudflare/lua-resty-cookie - Lua library for HTTP cookie manipulations for OpenResty/ngx_lua
c9s/github-taiwan - Taiwan Developers on Github
PadreIDE/Padre - Offical repository of the core Padre code
rovo89/XposedTools - These tools can be used to compile and package the Xposed framework.
openresty/nginx-devel-utils - Utilities for nginx module development
openSUSE/obs-build - OBS build script, can be used with OBS or stand alone
nichtich/ditaa-markdown - process ditaa diagrams embedded in pandoc markdown
bestpractical/prophet - A disconnected, replicated p2p database -- upstream is now http://gitorious.org/prophet
aparks517/convert-websters - Convert Webster's Unabridged Dictionary from Project Gutenberg to OSX dictionary
ap/titlecase - An attempt to refactor John Gruber’s Title Case program
yko/mojo.vim - Vim syntax for mojo epl templates in Mojo projects
tseemann/prokka - Rapid prokaryotic genome annotation
peterkeen/calorific - Command-line nutrient tracking tool
openresty/lua-resty-dns - DNS resolver for the nginx lua module
maxmind/MaxMind-DB - Spec and test data for the MaxMind DB file format
kazeburo/Kurado - monitor metrics
bigpresh/Dancer-Plugin-Database - Dancer::Plugin::Database - easy database support for Dancer applications
BaldMansMojo/check_vmware_esx - chech_vmware_esx Fork of check_vmware_api.pl
vanstyn/RapidApp - Turnkey ajaxy webapps
taylorchu/baker - The bash static site generator with real template engine
sujaikumar/assemblage - Tools for working with second gen assemblies, fasta sequences, etc
obfuscurity/nagios-scripts - Custom scripts written for Nagios
miyagawa/AnyEvent-Twitter-Stream - AnyEvent based Twitter stream consumer
miyagawa/AnyEvent-Redis - Asynchronous Redis client
drdrang/tp-planner - A set of scripts for printing TaskPaper documents compactly for inserting into a "Junior" sized planner.
ccurtsinger/stabilizer - Stabilizer: Rigorous Performance Evaluation
zrlram/afterglow - graph visualization tool
utcompling/OpenNLP-Models - A project for code to create models from existing corpora and distribute models.
theory/dbix-connector - Fast, safe DBI connection management
redondos/mutt - mutt configuration
p5-app-adventcalendar/p5-app-adventcalendar - let's make advent calendar!
motemen/Teto - nicovideo stream player
lifeforms/irssi-smartfilter - Irssi JOIN/QUIT smart filter for busy channels
genehack/app-gitgot - A tool to make it easier to manage multiple code repositories using different VCSen
ytoolshed/multipkg - Automation for package builds
willemk/varnish-mobiletranslate - Tool to translate the latest mobile detect script into varnish
sashahilton00/spotify-connect-resources - A repository to hold any data/stuff related to reversing the Spotify Connect protocol. Mostly just data dumps at the moment, but if you have something to add to it, be it an implementation, information or just another data dump, make a PR and I will add it asap.
kumina/nagios-plugins-kumina - A collection of Nagios plugins that we package.
jbergantine/django-template.mode - Django Template Syntax mode for Panic Coda 2
jasta/android-dev-tools - Collection of developer tools for working with Android.
devel/PowerDNS-API - HTTP API for the PowerDNS Database
daniel-nichter/hackmysql.com - Deprecated tools from HackMySQL.com
agentzh/cheater - A tool and a language that help generating random complex database instance based on predefined rules
GMOD/GBrowse - the Generic Genome Browser
yaoweibin/nginx_limit_access_module - support to deny specific variable with HTTP POST interface
yanick/git-cpan-patch - System to write patches against CPAN modules via Git
synacorinc/dtk - DTK (data toolkit) is a suite of tools for parsing, analyzing, and graphing logs and other datasets.
schweikert/postgrey - Postfix Greylisting Policy-Daemon
noodba/myawr - awr of MySQL
marcusramberg/Mojolicious-Plugin-OAuth2 - OAuth support for Mojolicious
lukeredpath/LRMocky - A port of jMock 2.0 for Objective-C
linux-test-project/lcov - LCOV
gamelinux/echidna - Network Security Monitoring Framework
datameet/india-election-data - To map publicly available datasets related to General Assembly (Lok Sabha) elections in India.
cmatsuoka/figlet-fonts - A collection of fonts for FIGlet
ambs/Books - My repository to book projects... if I eventually have the guts to write more than one...
abw/Template-TT3 - A working prototype of the TT3 template language
yasuaki/git-doc-ja - Japanese translation of git/Documentation/
xdata-skylark/libskylark - Sketching-based Distributed Matrix Computations for Machine Learning
typester/nim - minimal command-line based contents generator
trapd00r/utils - Small useful utilities for everyday work
plack/Plack-Middleware-Session - A very minimalist session library for Plack
openxpki/openxpki - OpenXPKI Code
onishi/mysqldiff - mysqldiff - mysql scheme diff
mikegrb/App-otfile - Serve a single file, once, via HTTP over the local network.
mikebrittain/Wesley - Compress and optimize the JPEG, PNG, and GIF files used in your site’s HTML and CSS.
kthakore/frozen-bubble - Making frozen bubble cross platform
hluk/vimColorsToQtCreator - Convert vim color schemes so they can be used in Qt Creator.
cvicente/Netdot - Network Documentation Tool
ciembor/TerminalHero - Linux society's response to Guitar Hero. :)
carloslima/dhsnapshot - RSnapshot-like backups to DreamHost Backup Service
alecchen/doxygen-lua - Make Doxygen support Lua
AgileBits/onepassword-utilities - Utilities for 1Password
yrmt/dotfiles - a few of yrmt (beastie)'s dotfiles
willixix/WL-NagiosPlugins - Clone of naglio-plugins repository for those using old name
rafl/moosex-method-signatures - Method declarations with type constraints and no source filter
proftpd/proftpd - ProFTPD source code
plainblack/Wing - Next generation web services toolkit.
msimerson/NicTool - NicTool: a DNS management solution
j0hnnMcCock/fuckNSA - fuckNSA
dbsrgits/sql-translator - SQL::Translator (SQLFairy)
cryptax/dextools - Miscellaenous DEX (Dalvik Executable) tools
cosimo/varnish-accept-language - An experimental VCL extension to squash client Accept-Language headers
catap/nginx-catap - catap's nginx repository
ConSol/omd - OMD - Open Monitoring Distribution Labs Edition
42Lines/cq5tools - Handy CLI tools for working with Adobe's CQ5 CMS product
thomasfrivold/SilentBob - SilentBob Firewall
starlilyth/Linux-PoolManager - Web based miner manager for CGMiner and clones (SGMiner, Keccak, etc) on Linux (PIMP/BAMT/SMOS, Debian, RedHat/Centos).
perl-pod/pod-simple - Framework for Parsing and Formatting POD
openresty/opsboy - A rule-based sysadmin tool that helps setting up complex environment for blank machines
nekokak/qudo - job queue system
moshen/Image-Term256Color - Display images in your 256 color terminal! (kinda) - superseded by https://github.com/moshen/gotermimg
kazuho/cppref - man-style access to cppreference.com documents
jquelin/dist-zilla-plugin-git - dist::zilla plugin to update your git repository after release
jonlives/nagios-jenkins-plugin - A nagios plugin for which lets you check jenkins jobs according to various criteria.
ikebe/Pickles - Tiny Web Application Framework.
gws/munin-plugin-couchdb - Munin plugins for graphing CouchDB statistics.
dyne/gitzone - git-based zone management tool for static and dynamic domains
duggan/shlint - A shell linting utility.
bloonix/logstash-delete-index - A script to delete Elasticsearch indices of Logstash
angavrilov/df-structures - Dwarf Fortress data structure descriptions
alibaba/tengine-website - The source code of Tengine's website (tengine.taobao.org)
SpiderLabs/thicknet - TCP session interception and injection framework
AssetTracker/rt-extension-assettracker - Asset Tracker is an extension for Request Tracker. It integrates asset tracking with your favorite ticketing system.
tokuhirom/Daiku - Yet another build tool on Perl5
schweikert/mailgraph - Mail plotting script
plainblack/Lacuna-Server-Open - The open source Lacuna Server repository.
netoptimizer/IPTV-Analyzer - Fast MPEG2 Transport Stream Analyzer, based on Netfilter kernel module
kvorg/mojo-handbook - Mojolicious Handbook: a temporary documentation resource for Mojolicious
kablamo/VimDebug - Integrate your debugger with Vim. Currently supports Perl, Python, and Ruby. This code is very much in beta.
genome/gms - The Genome Modeling System installer (BETA).
franckcuny/presque - a simple redis/tatsumaki message queue
dgl/cgiirc - CGI:IRC web based IRC client
dann/angelos - yet another web application framework
Bibzball/Git-Mediawiki - Gate between git and mediawiki
trustly/pci-blackbox - PCI-DSS compliant card system built on PostgreSQL and PL/pgSQL
tomill/Template-Semantic - Use pure XHTML/XML as a template
raboof/realtimeconfigquickscan - Linux configuration checker for systems to be used for real-time audio
postcasio/coda2-modes - Syntax modes for Coda 2.
norm/homedir - Public home directory files
nindwen/config - Arch Linux config-files
lvc/pkgdiff - A tool for visualizing changes in Linux software packages
jjn1056/DBIx-Class-Migration - Use DBIC::DeploymentHandler and DBIC::Fixtures together for a sane database versioning workflow
hpcugent/easybuild-easyconfigs - A collection of easyconfig files that describe which software to build using which build options with EasyBuild.
gfx/p5-Data-Validator - Type constraints based data validator for Perl5
evalEmpire/method-signatures - Method and function declarations with signatures, no source filter
yogan/cope - A colourful wrapper for terminal programs
trinityrnaseq/trinityrnaseq - Trinity RNA-Seq de novo transcriptome assembly
tokuhirom/p5-router-simple - simple http router
thiagorondon/OpenData-BR - OpenData-BR
skx/slaughter - The Slaughter system-administration & configuration tool.
mizzy/webiblo - Web to ebook project
miyagawa/Dist-Milla - Opinionated and Unobtrusive distribution builder
meermanr/TVSeriesRenamer - Script for renaming files in a digital video collection. Automatically fetches episode titles from the web.
markround/Cacti-iostat-templates - A set of templates to monitor iostat statistics on Unix systems
gvalkov/gitolite-sshkey-form - A web app for submitting ssh public keys directly to gitolite
ftilmann/latexdiff - Compares two latex files and marks up significant differences between them. Releases on www.ctan.org and mirrors
eprints/eprints - EPrints Core
eksopl/fuuka - Fuuka Imageboard Archiver
aelse/dot-ssh-config - Generate SSH client configurations with support for tunnels
Perl5-Alien/Alien-Base - Base classes for Alien:: modules
Ovid/example-test-training-material - Sample Code From Ovid's Introductory Testing Course
LuRsT/vspark - Like spark, but vertical
DjebbZ/Drupal-PHPStorm-Live-Templates - PHPSTorm Live Templates (aka code snippets) for Drupal 7
zamiron/ru4sphinx - Creating Russian voice model for cmu-sphinx
yappo/p5-Data-Model - Data::Model is Data/Object Mapper and Model Manager.
xaicron/p5-www-youtube-download - YouTube video download interface.
vti/protocol-websocket - Protocol::WebSocket
ukigumo/Ukigumo-Server - This is a ukigumo server application.
treasonx/environment - Personal Environment Files (vim, bash, etc)
sartak/app-nopaste - easy access to any pastebin
rolandwalker/emacs-travis - Travis CI recipe for Emacs libraries.
msimerson/sentry - Bruteforce attack blocker (ssh, FTP, SMTP, and more)
lookout/ngx_borderpatrol - Edge-authentication
ipfire/ipfire-2.x - IPFire 2.x development tree
dgl/cpangrep - Search code on CPAN with Regexps
bugzilla/bugzilla - Read-only mirror of Bugzilla source from git.mozilla.org/bugzilla/bugzilla.git. Tests at https://travis-ci.org/bugzilla/bugzilla –
avar/irssi-bitlbee-facebook-rename - A irssi script to rename chat.facebook.com nicks in bitlbee from e.g. "u1359078110" to "AEvarArnfjord"
artm/qtcreator-solarized-syntax - Solarized style for Qt Creator's syntax highlighter
SharkHunter/Channel - Channel Browse plugin for PMS
OpenElectronicsLab/eeg-mouse - The eeg-mouse is a project to attempt to control a mouse with eeg signals.
yusukebe/App-revealup - HTTP Server app for viewing Markdown formatted text as slides
yappo/JSTAPd - JSTAPd is Ajax application friendly Javascript Unit Test Server.
wayfind/polite - 一个为前端开发者量身打造的Vim配置和插件精选集
smallfish/lua-resty-beanstalkd - non-blocking beanstalkd client lib for ngx_lua
sixteencolors/sixteencolors - Sixteen Colors ANSI/ASCII Art Archive
perigrin/moosex-poe - The illicit love child of Moose and POE
ole-tange/tangetools - Ole Tanges personal tools
nothingmuch/class-mop - Mirror of Class-MOP.git
mjollnir/sf2debpkg - Symfony2 Debian Packaging
miyagawa/plack-dispatching-samples - Examples of Plack dispatcher using various CPAN modules
miyagawa/Webhook-Growler - Receives Web hooks over Reverse HTTP and notifies via Growl
miyagawa/HTTPx-Weblet - the Request/Response objects formerly known as the-old-Plack::Request
miyagawa/Corona - Coro based high-performance, asynchronous PSGI web server
mengwong/org-asana - Roundtrip synchronization and bidirectional replication between Emacs Org-mode and Asana.com.
keydet89/Tools - Tools from WFA 4/e, timeline tools, etc.
kan/moxy - Mobile web development proxy
goccy/p5-Compiler-Tools-CopyPasteDetector - detect Copy and Paste of Perl5 Codes
ctcherry/easy_php_dev - Collection of tools to quickly setup a dynamic PHP dev environment on OSX
chromatic/CPAN-Dark - Manage your own DarkPAN
chansen/p5-http-tiny - Tiny HTTP Client
bobtfish/catalystx-simplelogin - Simple login controller and template bundle for Catalyst
bestpractical/git-sync - A tool to synchronize multiple git repositories
Gilwyad/mailnesia.com - Anonymous Email in Seconds
Ensembl/ensembl-rest - Language agnostic RESTful data access to Ensembl data over HTTP
CalculatedContent/tsvm - experiments testing transductive svm for my blog posts
zby/WebNano - A really minimalistic web framework.
wtsi-hgi/docker-proxify - Allows building and running docker container images from behind a corporate proxy
tokuhirom/p5-psgiref - (DEPRECATED)just a prototype!
robelix/hard-dj - arduino based DJ MIDI cotroller using Harddisks as jog wheels
rjbs/dzil.org - the source for dzil.org
perldoc-jp/module-pod-jp - 日本語訳したモジュールをおく場所その2
motemen/Plack-Middleware-WebSocket - WebSocket handshake helper middleware
kivitendo/kivitendo-erp - Web-based ERP system for the German market
hinrik/hailo - A conversation bot using Markov chains
g0v/moedict-data-csld - 中華語文知識庫資料檔
freenode/gms - Group Management System
doy/reply - read, eval, print, loop, yay!
digitalbazaar/json-ld - A Context-based JSON Serialization for Linked Data
dcantrell/ldap-for-dhcp - OpenLDAP support for dhcpd in ISC dhcp
cjfields/biome - An experimental Moose-based BioPerl implementation
brennen/git-feed - git-feed: a script to generate Atom feeds for git commit logs
bobthecow/PHP-HTML.mode - A fork of Coda 1.x's PHP-HTML syntax mode. Doesn't work with 2.x :(
ant0ine/MongoDB-RDF - Stores RDF-JSON documents in MongoDB
adrian-bl/bitflu - Bitflu BitTorrent Client
MG-RAST/MG-RAST - metagenomic analysis server site code
xaicron/pm-uninstall - Uninstall modules
windytan/bitocular - A tool to quickly examine the general structure of a file.
toreanderson/clatd - A 464XLAT CLAT implementation for Linux
sitaramc/map - Simpler than xargs. More power than xargs.
silvansky/macscripts - My Mac OS X scripts for different needs (may need some of my Mac OS X command line utils)
nekokak/p5-Kamui - Plack base framework
nabokov/mecab-dic-overdrive - create new mecab dic file, with score adjustment in accordance with existing terms.
miyagawa/Catalyst-Engine-PSGI - PSGI engine for Catalyst
melo/scripts - My personal script stash
liedekef/spacewalk_scripts - Several spacewalk scripts
kraih/mojolicio.us - Mojolicious Website
interconnectapp/discuss - A place to discuss interconnect
glidenote/dotfiles - my dotfiles
elubow/ec2-consistent-snapshot - EC2 Consistent Snapshot with Mongo Support
dalibo/pgshark - Messing with PostgreSQL network traffic to make some usefull things
clkao/AnyMQ - Simple message queue based on AnyEvent
chrisbra/vim_faq - The Vim FAQ from http://vimdoc.sourceforge.net/
PerlDancer/advent-calendar - Articles for the advent calendar
Kimtaro/jisho.org - The source for classic.jisho.org
shoorick/mojowka - Small wiki based on top of Mojolicious::Lite