Search Results for "osf/motif" - Page 2
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Showing 69 open source projects for "osf/motif"
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xmsvm
X motif storage volume manager
Small X11 motif storage volume manager for Linux. Used udisk, libdbus. -
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EZ-Arch Linux
An Arch Linux based distro
This is another arch Linux based distro with an installer to make it slighly easier and also it is preferred to be kept on a UNIX like philophsy where the GUI is equipped with the Motif Window Manager as well as awesome, icwem and twm. As from version 1 there is 32 and 64 Bit versions of this OS. It is good for minimalist type OSes who are not interested in very heavy GUIs. Future Videos will be uploaded to Dailymotion.com and the project URL is on. http://www.dailymotion.com... -
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MITSU
Stochastic EM for transcription factor binding site motif discovery
MITSU is an algorithm for discovery of transcription factor binding site (TFBS) motifs. It is based on the stochastic EM (sEM) algorithm, which overcomes some of the limitations of deterministic EM-based algorithms for motif discovery. Unlike previous sEM algorithms for motif discovery, MITSU is unconstrained with regard to the distribution of motif occurrences within the input dataset. MITSU also has the ability to automatically determine the most likely motif width by incorporating... -
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chipexo
model based analysis of ChIP-exo data
... with higher sensitivity, specificity and spatial resolution, as evidenced by multiple criteria, such as motif enrichment, sequence conservation, nucleosome positioning, and open chromatin states. -
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IMPACT is an integrated multi-read peak calling tool for ChIP-Seq data. IMPACT utilizes multi-reads in calling peaks and provides users with high-confidence peaks. In addition, IMPACT provides a completely integrated pipeline which produces downstream analysis results such as motif discovery and peak-to-gene annotation.
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.... Il suit le motif de conception Modèle-Vue-Contrôleur et imite le fonctionnement de Ruby on Rails. Il est développé par Cake Software Foundation.
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PANDA
Passing Attributes between Networks for Data Assimilation
PANDA (Passing Attributes between Networks for Data Assimilation), is a message-passing model to gene regulatory network reconstruction. PANDA integrates multiple sources of biological data, including protein-protein interaction, gene expression, and sequence motif information, in order to reconstruct genome-wide, condition-specific regulatory networks. PANDA is also available in other programming languages, including: MATLAB/Octave: (1) https://drive.google.com/a/channing.harvard.edu/file/d... -
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BRACIL
ChIP-seq analysis tool
Binding Resolution Amplifier and Cooperative Interaction Locator (BRACIL) is a blind-deconvolution model that integrates ChIP-seq coverage with motif discovery. BRACIL predicts binding site locations with high-resolution and also cooperative interactions in ChIP-seq data. -
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cmotif
A method for mining conditional phosphorylation motifs
Phosphorylation motifs represent position-specific amino acid patterns around the phosphorylation sites in the set of phosphopeptides. The discovery of phosphorylation motifs is a very valuable work in bioinformatics. Although several algorithms have been proposed to uncover phosphorylation motifs, the problem of efficiently discovering a set of significant motifs with sufficiently high coverage and non-redundancy still remains unsolved. In this paper, we propose an algorithm called C-Motif... -
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jCryptoTrader
Java crypto-currency exchanges trading client
... signals, etc) * Port to Android (only gui required, because it's Java) # Known issues: * BTC-e returns extremely insufficient history data * Skins "System", "Motif" and "GTK" doesn't work properly -
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AS-peak
ASPeak: an abundance sensitive peak detection algorithm for RIP-Seq
... (EJC) RNA immunoprecipitation in tandem (RIPiT) experiments. Our peak detection algorithm yields stringent and robust target sets enabling sensitive motif finding and downstream functional analyses. -
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Microline
Widgets for Motif
The Microline widget set provides the following widgets for Motif: Grid, Folder, Progress, Tree. Microline is an old project. It has been reactivated by Christian Linhart because he was contracted by Arahne, d.o.o. ( www.arahne.si ) to add support for XFT and UFT-8 to this widget set. -
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FOCIS
FOCIS finds features for functional follow-up
FOCIS (Feature Overlapper for Chromosomal Interval Subsets) performs an interval-based screen of a database of genomic features – ChIP-seq peaks, motif matches, and others – for overlap enrichment at a specific subset of genomic regions relative to a dataset-matched background. It was recently used to discover a novel enhancer that mediates drug resistance in melanoma. -
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PTMs_Motif
Discovery protein PTM cross-talk motifs from large scale dateset
The PTMs_Motif project is freely available bioinformatics software platform to comprehensive analysis sequence motif of protein post translation modifications cross-talk. The project include two important parts: 1, extract PTM combination motifs from large scale dateset of PhosphositePlus database. 2, calculation motif evolutionary conservation score by comparing homologous protein sequences of 15 vetebrates. -
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PatterncClust
Motif cluster identification algorithm
PatternClust − программа быстрой полногеномной идентификации на нуклеотидной входной последовательности ДНК или РНК кластеров вхождений определённого мотива (гомогенных кластеров сайтов). Программа PatternClust получает на входе нуклеотидную последовательность (в формате .fa), мотив сайта связывания в виде слова или набора слов (в формате .fa) или в виде самой матрицы позиционных частот (в формате .pat), а на выходе выдает таблицу, содержащую кластеры сайтов связывания, ранжированные по... -
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Genome Hash
A program that scans genomes for clusters of user-defined sequence mot
Genome Hash is a line-command program that canbe used to search any NCBI Genbank formatted genome for clusters of user-defined motif sequences. -
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RegExpMatch
Search individual motif sites based on regular expression
A handy tool to search individual motif sites based on regular expression -
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PatternMatch
Search individual motif sites based on consensus
A handy tool to search individual motif sites based on consensus. It supports degeneracy and mismatches. -
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SLiMScape
A Protein Short Linear Motif Analysis Plugin for Cytoscape
SLiMScape adds Short linear motif discovery tools to Cytoscape, transforming it into a SLiM discovery platform. A tutorial is available at the following URL: http://bioware.ucd.ie/slimscape/ -
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partitioning
The role of spatial partitioning in biochemical signaling.
This site hosts code investigating the role of spatial partitioning in biochemical signaling. We consider a network motif that is ubiquitous in membrane signaling. We numerically implement the exact solution to a stochastic model of the motif. We also simulate diffusion and reactions of molecules explicitly on a two-dimensional lattice. -
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NanameUe
"NU" motif discovery tool.
Finds a biological motif from (a small number of) DNA sequences. -
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GeneNetWeaver (GNW) is an open-source tool for in silico benchmark generation and performance profiling of network inference methods. GNW was used to generate the community-wide DREAM3, DREAM4 and DREAM5 In Silico Challenges.
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