Search Results for "bowtie-1.2.0" - Page 2
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Showing 49 open source projects for "bowtie-1.2.0"
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Bright Data - All in One Platform for Proxies and Web ScrapingBright Data offers the highest quality proxies with automated session management, IP rotation, and advanced web unlocking technology. Enjoy reliable, fast performance with easy integration, a user-friendly dashboard, and enterprise-grade scaling. Powered by ethically-sourced residential IPs for seamless web scraping.
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ncPRO-seq
Non-Coding RNA PROfiling from sRNA-seq
ncPRO-seq is a tool for annotation and profiling of ncRNAs from smallRNA sequencing data. It aims to interrogate and perform detailed analysis on small RNAs derived from annotated non-coding regions in miRBase, piRBase, Rfam and repeatMasker, and regions defined by users. The ncPRO pipeline also has a module to identify regions significantly enriched with short reads that can not be classified as known ncRNA families. ############# Docker version : download and run Dockerfile (go in... -
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ShutMeDown
A simple shuttingdown application for Windows
ShutMeDown 1.2.0 is an simple application that will help you automate common system tasks on your computer, such as shutting down, restarting, hibernating and more. It allows you to create automatic timers to make life easier. You can now set shutting down at particular time and see remaining time on graphical indicators. By using SMD you can save electric energy and money by setting appropriate tasks. You can limit time that you and other users spend using your computer with 'limit tasks... -
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GADfit
Global nonlinear optimization with automatic differentiation
NOTE: Development continued at GitHub! Current version is higher than 1.2.0. GADfit is a Fortran implementation of global nonlinear curve fitting, based on a modified Levenberg-Marquardt algorithm. Global fitting refers to fitting many datasets simultaneously with some parameters shared among the datasets. The fitting procedure is very fast and accurate thanks to the use of automatic differentiation. The model curves (fitting functions) can be of essentially arbitrary complexity... -
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jChIP
Graphical environment for exploratory ChIPSeq data analysis
jChIP is a GUI-based Java application for ChIP-Seq data analysis. It was created to build binding profiles between proteins and loci in the genome. In addition it computes statistics of the number of loci/positions containing specified amount of tags. jChIP is able to load data in several common formats (SAM, BAM, WIG, BED, Bowtie) and download loci definitions directly from the Ensembl database. http://www.biomedcentral.com/1756-0500/7/676 -
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openSEQ
NGS compute distro proloaded with pipeline analysis software
.... The first homepage tab links to our pipeline constructer. The second homepage tab links to a xterm session on the client. Software included (location - name): path - biobambam path - bwa path - bowtie2 path - bowtie path - cufflinks path - bcftools path - tophat path - scalpel path - samtools path - sra-toolkit path - bamtools path - delly path - delly-parallel path - picard-tools path - fastahack path - twoBitToFa ~/prog/java/ - mutect ~/prog/python/ - platypus ~/prog/java/ - gatk -
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InMethyl
Design of target-specific primers for bis. sequencing of CpG-islands
InMethyl is a Python-based application for the design of target-specific primer combinations for PCR amplification and bisulfite sequencing of complete CpG-islands. InMethyl uses bowtie high-throughoutput aligner to identify potential mis-priming sites in the bisulfite treated or intact genome and then – undesirable potential PCR products. InMethyl provides a balance between various characteristics that allows to pick up primers in hard-to-study genomic regions. This balance is based... -
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PhpMumbleAdmin is a complet administration panel for murmur 1.2.0 and higher. It's communicate over ICE and it's designed for multiple servers.
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Maggie OpenMax Player
The OpenMax based Media Player for Embedded platform
This is an Open Source media player, which targets to the embedded hardware platform(such as Set-Top-Box, Mobile phone, Pad etc). The overall software architecture includes 2 parts: 1) Mag OpenMax library, the implementation of the OpenMAX Integration Layer (IL) API ver. 1.2.0, specified by the Khronos group (see http://www.khronos.org/openmax). The component plugins are implemented to realize the demo playback functionalities. The code could be found under the directory: omx_il/vendors... -
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Rungus Radio & TV Player
Rungus Radio & TV Player Versi 1.2.0
Rungus Free TV & Radio Player is a basic program that gives users access to a large number of Indonesian television & radio stations. -
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mod_MumbleLink
Positional Audio Communication for Minecraft with Mumble
A Mod so that Minecraft now natively supports Mumble's positional audio feature. This means: Directional and positionally attenuated VOIP in relation to the game world. Please visit the Forum for information about the newest Version! Main Forum-Thread: http://www.minecraftforum.net/forums/mapping-and-modding/minecraft-mods/1272675 TheSkorm's Fork on GitHub: https://github.com/TheSkorm/mod_mumblelink Mumble: http://mumble.sourceforge.net Donations are greatly appreciated:... -
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SpeeDealing ERP & CRM
SpeeDealing ERP & CRM (distributed)
... (www.dolibarr.org). Speedealing is now using NoSQL database to replace old MySql and Postgresql. We can now use it in a distribute environnement and synchronisation. The NoSQL database is couchdb 1.2.0 a NoSQL oriented document. This new database will be synchronise with iOS an Android application. -
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FFmpeg iOS build script
Shell scripts to build FFmpeg for iOS and tvOS
Shell scripts to build FFmpeg for iOS and tvOS. This is a shell script to build FFmpeg libraries for iOS and tvOS apps. -
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Horus Framework
Smart Micro PHP Framework inspired by Sinatra in Ruby but not a clone
An OOP PHP micro-framework, a lightweight toolkit to help developers lay down the foundation of their PHP-based websites and applications The Horus Framework is a pretty solid attempt at designing a good OOP framework in as a small package as possible. Focused on a light codebase and on a solid, standards-friendly approach, Horus can be used to write advanced applications without having to deal with complex coding toolkits like Zend or CakePHP. Horus is easy to learn and the code... -
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Software quality assurance is essential in genomic medicine. Nonetheless there is currently no systematic evaluation of existing computational tools used for whole genome or whole exome sequencing data analysis. We developed a Metamorphic Testing tool that tests three widely used short-read alignment programs (BWA, Bowtie and Bowtie2) in order to systematically evaluate their performance.
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estMOI
estimating Multiplicity Of Infection using short read sequence data
... BWA, BOWTIE, SMALT or other short read aligners to generate a BAM file. 2. Single Nucleotide Polymorphysms (SNPs) are then identified using SAMTools in the VCF format. 3. The reference FASTA file is expected to be indexed using 'samtools faidx' to generate a *.fai file. estMOI generates files containing MOI estimates for each SNP combinations (file with name *.LOG) and a summary for all chromosomes (file with name *.txt). Contact: samuel.assefa @ lshtm.ac.uk -
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Tuque
Tools for mapping RNA-Seq reads to eukaryotic genomes
Tuque includes 4 programs: tuqueIndex to prepare Bowtie indexes that include spliced sequences tuqueMap to map reads using the prepared indices tuqueSplice to find splice junctions from the reads tuqueCount to count the reads mapping within annotated sequence intervals -
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EncoreBassing
EncoreBassing Preview
This is a Vietnamese Open-source Multimedia Player. Decode any codecs like MP3, MP4, ADX, OGG, WAVE, WMA, WMV,.... Based the BASS.dll & Fmodex.dll. The project is back since July 16th 2013. Version 1.2.0 is coming soon. -
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**The new version WebsitePanel 1.2.0 is available at http://websitepanel.codeplex.com ** **Please visit the above website for the latest release of the software. Legacy code releases will remain on SourceForge for user access**
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Split_er is a javascript object that provides functionality similar to that of the String.split() method with many enhancements. Visit http://splitterjsobj.sourceforge.net/ for details and a demo. Latest version: 1.2.0. Release notes on demo page.
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It's a free and handy text editor for both plain text files and formatted text files and printing. Since release 1.2.0 there is a tool for the conversion in PDF format. It's written in Java language so it's available for a lot of Operative Systems.
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BowTIE (Brass Technique Instruction Environment) is an application designed to help trumpet, horn, euphonium, and tuba players learn fingering technique. BowTIE provides excellent support for trumpet and horn players who are learning to transpose.
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DiffKey is a keyer plugin for the Linux video editor Cinelerra (it is included in release 1.2.0). It allows bluescreen/greenscreen style keying and compositing, based on the difference between the current frame and a frame showing only the background.
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Gaea
Gaea is designed for re-sequencing tasks.
Serving as a flexible cloud-based framework, Gaea includes the majority of currently popular algorithms for sequence alignment (SOAP2, Bowtie, and BWA) and biomarker discovery (SOAPsnp, SAMtools, and Dindel). It surpasses the performance of currently available alignment software by aggregating their advanced functionalities into a unified cloud-based solution. Due to the internal Hadoop infrastructure, intermediated results from different software algorithms can be efficiently organized...