Bowtie, an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers. Please cite: Langmead B, et al. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25.
Desktop search application
DocFetcher is an Open Source desktop search application: It allows you to search the contents of files on your computer. — You can think of it as Google for your local files. The application runs on Windows, Linux and Mac OS X.
RED searches and deletes empty directories recursively below a given start folder and shows the result in a well arranged tree. Further you can create some custom rules for keeping and deleting folders. Empty files in directories can also be ignored.
A powerful and fast search tool using regular expressions
grepWin is a simple search and replace tool which can use regular expressions to do its job. This allows to do much more powerful searches and replaces. Note: project has moved to GitHub https://github.com/stefankueng/grepWin
One hundred command line tools in a small and portable binary.
Create zip files, extract zip files, replace text in files, search in files using expressions, stream text editor, instant command line ftp and http server, send folder via network, copy folder excluding sub folders and files, find duplicate files, run a command on all files of a folder, split and join large files, make md5 checksum lists of files, remove tab characters, convert CR/LF, list newest or biggest files of a folder, compare folders, treesize, show first or last lines of a file, find filenames fast using index files, rename many files using expressions, copy part of a file, change times of a file, set file time from filename, print colored text to terminal, convert csv to tab separated, download files from web, send http or udp requests, print tcp or udp traffic, create hexdump of files, join many text files into one, list nested .zip .tar .tar.gz .tar.bz2 archive contents. Fully portable, for USB stick, without installation. For Windows, Linux and Mac OS/X.
An effective, full-featured launcher for Windows
WoX or Windows omni-eXecutor is a free and effective full-featured launcher that allows you to be more productive. With WoX you can access programs and web content as you type, and choose from dozens of plugins and a selection of themes. You can also use pinyin to search for programs.
Search and replace operations on file content accross multiple files. Recursive operations within entire directory trees. FAR comes with support for regular expressions (regex) over multiple lines, automatic backup and various character encodings. Run grep like extractions to condense or rearrange sources, or perform bulk file renaming.
deletes junk files to free disk space and improve privacy
BleachBit frees disk space and maintains privacy. Cleans cache, Internet history, temporary files, logs, cookies, Firefox, Google Chrome, Flash, Windows, Linux, and more. Downloads are at www.bleachbit.org and source code is at GitHub.
TLPD is designed to tackle the 'path name too long' issue. It scans the directory tree, searching for files and folders with full path name that may be too long for Windows to handle. TLPD is portable, has silent mode. ReadMe and source are available.
CLucene is a C++ port of Lucene: the high-performance, full-featured text search engine written in Java. CLucene is faster than lucene as it is written in C++.
Locate32 finds files and directories based on file names.
Locate32 finds files and directories based on file and folder names stored in a database. Locate32 saves to a database the names of all files on your hard drives. Once the file indexing has occurred, you can locate files quickly by using the application's search form. It works like "updatedb" and "locate" commands in Unix. In other words, it uses databases to store information about directory structures and uses these databases in searches. The use of these databases provides very fast searching speed. The software includes a dialog-based application as well as console programs that can be used to update and access the databases. Locate32 is not primarily meant to find text or data within files, but it has a primitive feature to do this.
libjpeg is a free software library written for JPEG image compression.
An open source search engine with RESTFul API and crawlers
OpenSearchServer is a powerful, enterprise-class, search engine program. Using the web user interface, the crawlers (web, file, database, etc.) and the client libraries (REST/API , Ruby, Rails, Node.js, PHP, Perl) you will be able to integrate quickly and easily advanced full-text search capabilities in your application: Full-text with basic semantic, join queries, boolean queries, facet and filter, document (PDF, Office, etc.) indexation, web scrapping,etc. OpenSearchServer runs on Windows and Linux/Unix/BSD.
Powerful desktop search app for Windows, Linux and Mac
Power searching on your desktop without the pain. Perform powerful desktop searches without having to index your system using regular expressions. Graphical equivalent to find/grep. Available for Windows (JAVA) and Linux (Gnome & KDE) and easy to translate into your locale.
Launchy is a free utility designed to help you forget about your start menu, your desktop icons, and your file manager. Launchy indexes and launches your applications, documents, project files, folders, and bookmarks with just a few keystrokes!
Semantic annotation of archaeology reports with respect to CIDOC-CRM
The semantic annotation system OPTIMA is the result of Andreas Vlachidis PhD work, (supervised by Prof. Douglas Tudhope, University of Glamorgan, UK). OPTIMA performs the NLP tasks of Named Entity Recognition, Relation Extraction, Negation Detection and Word Sense Disambiguation using hand-crafted rules and SKOS terminological resources (English Heritage Thesauri and Glossaries). The resulted semantic annotations are associated with classes of the (ISO 21127:2006) CIDOC Conceptual Reference Model (CRM) and its archaeological extension, CRM-EH. OPTIMA is also targeted at the detection and recognition of contextual relations between CRM entities. Such relations are modeled with respect to the CRM-EH archaeology extension. The pipeline targets the CIDOC-CRM entities; E19.Physical_Object, E53.Place, E49.Time_Appellation and E57.Material and the CRM-EH entities; EHE1001.Context_Event, EHE1002.Production_Event, EHE1004.Deposition_Event and P45.consists_of material property
phpMorphy is morphological analyzer library written in pure PHP. Currently supports Russian, English and German languages.
disk manager is a CD/DVD archiving tool. It storys the directory contents of any media so you can search it later. Its also designed as file explorer which makes it easy to find big files. Windows Version supports native file context menus.
GDuplicateFinder - A FREE Groovy way to find file duplicates!
Unlike other duplicate finders such as Easy Duplicate File Finder, Auslogics Duplicate File Finder, MindGems Fast Duplicate File Finder, Duplicate Cleaner, DupFiles and others, GDuplicateFinder is a FREE cross-platform application, with the ability to search among not just local files, but files on the network, such as a Windows or a Linux share using VFS library. Taking advantage of Groovy facilities and GPars power to process in parallel, GDuplicateFinder will help you get rid of those duplicates you always wanted to dispose in an easy and friendly way. Looking for translators to translate the app! If you'd like to help me, just send me an e-mail to firstname.lastname@example.org. Thanks in advance If you want to help me continue improving this app, donate some money through paypal! https://www.paypal.com/cgi-bin/webscr?cmd=_s-xclick&hosted_button_id=fezuqqg9t6j6y
Shell history suggest box - easily view, navigate, search your history
Are you looking for a command that you used recently? Do you want to avoid the need to write long commands over and over again despite you used them recently? Are you looking for a tool that is able to manage your favorite commands? HSTR is a command line utility that brings improved Bash command completion from the history. It aims to make completion easier and more efficient than Ctrl-r. Apart to the completion, history can be managed (you can remove commands that e.g. contain sensitive information like passwords) and bookmark your favorite commands.
A small application for listing the contents(files/folders/extensions) of a folder. The results includes file name length/full path length/maximum extensions. It supports exporting a report in .txt/.csv format with fully customizable contents.
Aperture is a Java framework for extracting and querying full-text content and metadata from various information systems (file systems, web sites, mail boxes, ...) and the file formats (documents, images, ...) occurring in these systems.
An advanced Java file/class finder with support for searching inside zip|war|ear|jar archives or finding text inside pdf|doc|ppt|UTF-8 files.
This tool enables users to search their NTFS formatted harddrives within seconds. It uses the MFT( master file table) of NTFS to search for files very fast. Ermöglicht eine extrem schnelle Dateisuche auf NTFS formatierten Festplatten.
DuMP3 is a duplicate and similar file finder.
DuMP3 is a duplicate and similar file finder. It finds exact duplicate binaries by hash, similar text files by substring content, images (JPG, BMP, GIF, PNG, etc) by color and audio files (MP3, WAV, OGG, etc) by wave data. Future: fonts, video.