Search Results for "next"

A suite of tools for analysing small RNA (sRNA) data from Next Generation Sequencing devices. Including expression profiling of known mirco RNA (miRNA), identification of novel miRNA in deep-sequencing data and identification of other interesting landmarks within high-throughput genetic data

... network flow and other graph algorithms. A fast parallel implementation of the network simplex method, and some full-fledged parallel/distributed MIP solvers will be added in the next version. In general, emphasis is given in improving the efficiency of the algorithms in shared-memory models via java threads, since multi-core machines are so wide-spread today.

... hesitate to review the software below or email Paul Craig [pac8612@rit.edu] with larger descriptions/bugs/feature ideas. Our next scheduled release will contain (in addition to 2DE and MassSpec) a 1D Electrophoresis simulation as well as a tab containing ChemAxon's MarvinSketch [http://www.chemaxon.com/products/marvin/] along with some improved functionality. It should be out shortly as we complete the creation and modification of a permanent domain for the project.

Variant detection in massively parallel sequencing. For one sample, calls SNPs, indels, and consensus genotypes. For tumor-normal pairs, further classifies each variant as Germline, Somatic, or LOH, and also detects somatic copy number changes. THE LATEST VERSION IS AVAILABLE ON GITHUB

... of stack and queue. The stack is a linked list of pair of true or false and object pushed on the stack. The queue is also such a linked list but is paired oppositely so previous queue state goes on the left and next object queued on the right of the new pair, so when the queue is navigated in sequence of that astronomically long bitstring (thats exponential of reusing objects in the acyclicNet), the Nav32 (using linearForward and treeForward for random access) first sees the oldest object queued

GenomeView is a genome browser and annotation editor that displays reference sequence, annotation, multiple alignments, short read alignments and graphs. Most major data formats are supported. Local and internet files can be loaded. This project has moved to GitHub: https://github.com/GenomeView/genomeview

Many biological laboratories dealing with genomic samples are facing the problem of sample tracking, both for pure laboratory management and efficiency, and for internal policies, such as Good Laboratory Practices (GLP). Our laboratory exploits PCR techniques and next-generation sequencing (NGS) methods, to perform high-throughput integration site monitoring in different clinical trials and scientific projects, based on the delivery of therapeutic genes by viral vectors integrating...

It's a program that plots Bode diagrams with an excellent precision. In this new version it's very easy to provide the function to plot thanks to a simply graphic interface in style "what you see is what you got". A smart output window allows to plot more than one graph at the same time, and easily compare them. The plotted graphs can be exported as images, in various format. Language supported: italian. Next version probably will include other languages; certainly english...

02-14-2014. Hamming distance calculation has been updated. These are python scripts to analyze antibody libraries sequenced by next generation sequencing methods (454, Ion Torrent, MiSeq) as described in D'Angelo et al MAbs. 2014 Jan 1;6(1):160-72.

trimMate is a tool to remove junction adapters as well as sequencing adapters from mate pair libraries and trim the sequences accordingly. It works on fastq files generated by next generation sequencing (NGS) machines. The release is source code only, please download from version control.

SolSNP is a Java-based DNA variant calling tool for Next-Generation Sequencing alignment data. SolSNP uses a modified Kolmogorov-Smirnov statistic and data filtering to confidently and quickly call variants on high-coverage aligned genomes.

A Step Closer to a Fully Gui ATLAS .log Converter A Gui .in Editor to be Used by ATLAS .log awk converter

PAICE is a rapid bioinformatics pathway visualization tool for KEGG-compatible accessions derived from Illumina Solexa next-gen and Affymetrix datasets. It colors KEGG pathways while appreciating detection-calls and duplicate gene copies.

ASSD is a simple biological sample database focused on the storage of proteomics data. It tracks every processing step incl. results throughout a sample's lifetime. Next to proteomics data it can also store other results like FACS or Western Blots.

The LTfLL project will create next-generation support and advisory services to enhance individual and collaborative building of competences and knowledge creation in educational and organizational settings.

HATS (Haplotype Amplification in Tumor Sequences) is a tool that calls the amplified alleles, and thus amplified haplotype, in copy number aberration regions in next generation sequencing tumor data. The amplified haplotype may reveal gene variants.

Mostly academic research Project about next generation computing (Software only), trying to find new ideas and solutions how computers can work in the future using technologies like voice recognition and synthesisation. Everyone is invited to join in

Extensions to the circuit simulator Ngspice. One extension is the integration of the next generation build system SCons.

VKAS uses genetic programming methods to find out the relationship among a set of independent and dependent variable. It is a problem solver software which uses evolutionary computing methods. When vkas is run, it creates a population of chromosomes at random. This population is then genetically modified and next population is generated. Each population is subjected to fitness calculation and if a suitable answer chromosome is found then vkas stops and the answer is printed. If a suitable...

A pure java user interface framework for building both web and gui applications, heavily inspired by the NeXT and OpenStep APIs. Includes clean-room implementations of parts of the WebObjects and JavaClient frameworks plus the Foundation classes.

Given a String , returns the next logically sequential string defined by a rule. The basic rule is, given a sequence of alphabets, it checks the string and returns a new string with one or more alteration. javadocs and source codes available inside.

Interlogy - next generation knowledge storage and prezentation system. Gives wide functionality for knwoledge evaluation. Interlogy is the same as forum, wiki, chat, socialnetwork, but all together.