Search Results for "motif"
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Showing 70 open source projects for "motif"
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CTK
CLIP Tool Kit (CTK)
CTK (CLIP Tool Kit) is a computational biology toolkit implemented in Perl, designed for analyzing CLIP sequencing data. It offers a streamlined pipeline from raw reads through peak calling and motif discovery. -
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bxfm
Little file manager for Motif
Little file manager for Motif -
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IUP is a portable toolkit for building graphical user interfaces. It offers a configuration API in three basic languages: C, Lua and LED. IUP purpose is to allow a program to be executed in different systems without any modification.
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CDE - Common Desktop Environment
The Common Desktop Environment, the classic UNIX desktop
The Common Desktop Environment was created by a collaboration of Sun, HP, IBM, DEC, SCO, Fujitsu and Hitachi. Used on a selection of commercial UNIXs, it is now available as open-source software for the first time. For support, see: https://sourceforge.net/p/cdesktopenv/wiki/Home/ -
Auth0 B2B Essentials: SSO, MFA, and RBAC Built InAuth0's B2B Essentials plan gives you everything you need to ship secure multi-tenant apps. Unlimited orgs, enterprise SSO, RBAC, audit log streaming, and higher auth and API limits included. Add on M2M tokens, enterprise MFA, or additional SSO connections as you scale.
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Rename Express (the tool extension)
A fast filename renaming tool
A powerful filename renaming tool capable of efficiently modifying, lowercasing, or uppercasing large quantities of files. This quick and robust utility is written in C and supports extended regular expressions for searching and substituting pattern strings in filenames. It is compatible with both Linux and Windows operating systems. -
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p3d
General data-reduction tool for fiber-fed integral-field spectrographs
p3d is a general data-reduction tool for use with fiber-fed integral-field spectrographs (IFSs); although, the spectrum viewer works with spectrum data cubes of any origin. The tool is built about the proprietary software IDL (Harris/EXELIS; see http://www.harrisgeospatial.com), but can be used without any license. Most slowly running loops are implemented in parallelized C (OpenMP). -
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Totally Built Linux Distro
build linux from termcap to GTK-4.7 100% non-stop
Build all of a light linux distro non-stop and no buildfails with just a few commands. (not including un-tarring initial DL) Current Build Time: 3 to 4.7 hours* on an iCore7 using -j8 It's all automatic from Termcap to Gtk-4 and making new USB, it's new enough run firefox 20-130 and Mathematica 4 - 14. Minimal commandlines and configuration required; just a few in itself. Cross Compiles i386 to x86_64 (note not a canadian cross). ~500 pkgs built including configured database... -
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Motif
Motif released as open source software under LGPL v2.1
Motif is a freely available source code distribution for the Motif user interface component toolkit. Motif 2.3.8 is an updated version of Open Motif 2.3 and is a major bug fix release. Please submit any bugs to http://bugs.motifzone.com For support and general help, please visit the ICS MotifZone: http://motif.ics.com -
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Gloss3D
3D Graphics by a Lightweight Open-Source Software
GLOSS is a lightweight 3D modeler / animator / renderer for GNU/Linux or Windows platforms. GLOSS is programmed in C/GTK3. -
Go from Code to Production URL in SecondsSkip the Kubernetes configs. Cloud Run handles HTTPS, scaling, and infrastructure automatically. Two million requests free per month.
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Finding DNA Repeats by RFRE
RFRE is a tool to find DNA repeats (tandem and short)
...The Metacharcter and their behaviours in the context of regular expressions are the main methods to identify the different searched patterns and by different combination of Metacharcter, the programmed tool can search and detect the pattern of DNA sequence. Repeater Finder Regular Expression Tool Regular Expression for Protein Motif Search and SSR sequence. https://sourceforge.net/projects/rfret/files/RFRE122019.exe/download https://www.preprints.org/manuscript/201910.0249/v1 https://sites.google.com/must.edu.eg/finding-dna-repeats/home ---------------------------------------------- *****Very important program must be downloaded before you run the EXE FILE OF RFRE***** 1-VB6 Runtime Plus 2.2.exe , https://sourceforge.net/projects/vb6extendedruntime/ -
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IMLAB
A Free Experimental System for Image Processing
ImLab is a free open source graphical application for Scientific Image Processing that runs in Windows, Linux and many other UNIX systems. It supports multiple windows, data types including 32 bit integers, 32 bit real numbers and complex numbers. -
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Garnet - a Graphical Toolkit for Lisp
Garnet Common Lisp GUI Library
Garnet is a Graphical Toolkit for Lisp, which offers many advanced features. It was originally developed by Carnegie Mellon's User Interface Software Group and is one of the most feature rich interface toolkits available for lisp. The project has been dormant but some of us are trying to update it. To get the latest stable code, use the subversion repository: svn checkout svn://svn.code.sf.net/p/garnetlisp/svn/trunk garnetlisp-svn -
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Project Recovery developed by Batik Recovery Teamwork from Indonesia, this Batik Recovery is a derivative of the Official TWRP that was modified by the developer in accordance with the Indonesian characteristics. In Indonesia, batik is a motif that is considered quite famous for the beauty of its art. Therefore, the developer gave the name Batik Recovery and a touch of batik motifs in the Recovery, including splash, background, and icon. The goal of the developer to release the project is to further popularize batik, and especially to popularize the name of Indonesia.
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Microarray assosiated motif analyzer
Cis-element prediction tool from microarray data
We developed a novel clustering-free method, microarray-associated motif analyzer (MAMA), to predict novel cis-acting elements based on weighted sequence similarities and gene expression profiles in microarray analyses. Simulation of gene expression was performed using a support vector machine and based on the presence of predicted motifs and motif pairs. The accuracy of simulated gene expression was used to evaluate the quality of prediction and to optimize the parameters used in this method. ... -
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Mutiara motif designer
Design motifs the fun way
Mutiara is a border motif designer with an interesting twist. Even non-artists can easily design pleasing motifs. -
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Bracelet Generator
A friendship bracelet pattern designer.
Bracelet Generator is a friendship bracelet pattern designer. It enables you to easily design your own patterns, add rows and strings, change the colors. The pattern can also be symmetrized. With the two-colored motif editor, create your motif and the pattern will automatically be generated. The motif can be rotated and symmetrized. The patterns can be exported in .png, .jpeg and .ps. -
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...These chromatin-state-specific regulatory modules were found to have significant influence on gene expression. Furthermore, we observed that the identified regulatory modules and chromatin states may jointly determine the motif preference for specific class of proteins. Thus, our results reveal a relation between chromatin states and combinatorial binding of proteins in the complex transcriptional regulatory process.
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Arabidopsis Motif Scanner
Scanner of cis-regulatory elements in Arabidopsis genome
The major mechanism driving cellular differentiation and organism development is the regulation of gene expression. Cis-acting en-hancers and silencers appear to have key roles in regulating gene expression. Arabidopsis Motif Scanner was design to build gene networks by identifying the cis-regulatory elements position in the model plant Arabidopsis thaliana and by providing an easy interface to evaluate gene relations. -
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CRISPR-offinder-v1-2
A CRISPR tool for user-defined protospacer adjacent motif
CRISPR/Cas system undoubtedly holds great potential for genome editing. Target site cleavage by CRISPR technology requires a protospacer adjacent motif (PAM) immediately downstream or upstream of the protospacer element to which the sgRNA binds. However, Cas9 from different types of bacteria or variant recognizes different PAM sequences. To meet the needs of different CRISPR system with specific and efficient sgRNA design, CRISPR-offinder was developed. Given an input FASTA file of the target sites and queries the reference genome as well as a CRISPR system with a defined spacer length and PAM sequence, this standalone tool will identify putative sites and assign a predicted activity based on support vector machine model which conducted by sgRNA Scorer 2.0. ... -
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CUDA-MEME
Ultrafast scalable motif discovery algorithm using GPU computing
...The experimental results showed that our algorithm scales well with respect to both dataset sizes and the number of GPUs. At present, OOPS and ZOOPS models are supported, which are sufficient for most motif discovery applications. In addtion, this algorithm has been incorporated to NVIDIA Tesla Bio Workbench and deployed in NIH Biowulf. -
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mkmap
A map maker via online map services
Mkmap is a map maker by downloading map tiles from online map services, like google maps, and combining into a single large picture file. It accepts the latitude and longitude coordinates, then downloads and merges map tiles. The idea of mkmap is to generate a larger map than the size of a browser screen. So the map could be easily printed or viewed in an off-line device. Mkmap supports Linux and Windows platform. -
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CircularLogo is a light-weighted, easy to use web application that visualizes the intra-motif dependencies of a DNA or RNA motif.
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Motif based graphical Hex-dump of files. Includes searching for masked pattern, jump to file position and editing the file-contents. Display is "as is", without any endianess conversion. The file is displayed with address, Hex and text.
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geneslider
Gene Slider for Alignment Visualisation
Gene Slider can be used to visualize conservation and entropy of aligned DNA and protein sequences by presenting them as one long sequence logo. The presented sequence logo can be zoomed in and out. It can also display motifs in alignments. A built-in search function can be used to find motifs. Gene Slider is available online on the Bio-Analytic Resource and for download here. -
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Open Zinc
multiplatform graphical user interface
A C++ graphical user interface for MS_DOS, OS/2, 16 bit Windows, 32 bit windows, classic Macintosh, Linux and any unix supporting motif. A user interface designer is included.
