Search Results for "/storage/emulated/0/android/data/net.sourceforge.uiq3.fx603p/files" - Page 14
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Showing 1243 open source projects for "/storage/emulated/0/android/data/net.sourceforge.uiq3.fx603p/files"
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Get full visibility and control over your tasks and projects with Wrike.Wrike offers world-class features that empower cross-functional, distributed, or growing teams take their projects from the initial request stage all the way to tracking work progress and reporting results.
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Copy Number Analysis for Targeted Resequencing (CONTRA) is a tool for copy number variation (CNV) detection for targeted resequencing data such as those from whole-exome capture data.
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biosbl
Standard Bioinformatics Library
set of classes used to handle input/outputs of bioinformatics data files and basic operations as multiple alignment and phylogenetic reconstruction. -
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fast_count_multi
Extremely fast NGS read counter
Counts NGS read alignments against GTF annotations in a multithreaded and scalable fashion. Benchmark: 8 core 1M annotations for 2Gb sorted reads ~30 seconds compared to ~28 minutes for bedtools multicov. Files include: fast_count_multi - reports all counts and RPKM, multithreading support fast_count_deseq - reports gene counts in deseq compatible format, multithreading support fast_count - reports all counts with no multithreading support. usage ./fast_count_multi num_threads gtf_file bam_file(s) > output Requires bamtools API library at run time, and c++0x for compile. ... -
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MuffinEC
Multi-technology, INDEL aware error correction for NGS data
MuffinEC is an error correction software capable of handling all types of errors (insertion deletions, mismatches and unknown bases). It officially supports four technologies (Illumina, 454, ion Torrent and PacBio - experimental) and it also has a generic setup for others (old and/or new). It is released under LGPL version 3.0. MuffinEC can use multicore systems, thanks to its OpenMP implementation. We are developing the 2nd version of MuffinEC. The beta version is already available... -
Manage your ClassesDreamClass helps you efficiently manage all of your processes. Enjoy professional school management for any educational institution, in minutes!
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MCCCS
Multi Channel Classification and Clustering
Here we present an image-based Multi Channel Classification and Clustering System (MCCCS). It is an generalized, script-based classification system for processing various kinds of image data. Due to the modular design, individual processing-components can be easily adapted, extended or exchanged by own extensions. See project website for installation instructions. -
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mRIN
Assessing mRNA integrity directly from RNA-Seq data
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Lab Storage
Rediscover the Simplicity http://www.atgclabs.com/
...https://www.atgclabs.com/products/fw Freezer Web Access is a user friendly program designed to assist researchers with establishing an efficient system for storing frozen biological samples. FWA can track all of your research, development and process scale-up data in a single data storage platform, providing a organized and time effective means of keeping inventory and tracking samples on a large scale, while integrating sample storage and data storage on one easy-to-use format, minimizing confusion and increasing overall efficiency. With FWA, storage of samples is simple and systematic by entering them into the program according to their physical arrangements we create virtual containers matching these configurations and dimensions. -
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BamBam
Tools for genomic analysis
BamBam includes numerous tools for analyzing DNA next-generation sequencing data. Tools are provided for calling SNPs and indels, identifying large scale deletions, tabulating counts of mapped reads, methylation analysis, and more. Depends on SAMtools (http://samtools.sourceforge.net/) and BAMtools (https://github.com/pezmaster31/bamtools). Also uses BioPerl, which is included in the download tarball. -
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iCAS - An Illumina Clone Assembly System
An Illumina clone assembly system using SOAPdenovo and ABySS
Clone-by-clone sequencing, as a means of achieving high quality assemblies for large and complex genomes, continues to be of great relevance in the era of high throughput sequencing. However, assemblies obtained using current whole genome assemblers are often fragmented and sometimes have issues of genome completeness owing to different data characteristics introduced by multiplexed sequencing. With iCAS the data filtering process is based on a novel kmer frequency algorithm, resulting in near perfect pre-assembly reads. Contigs are generated using different assembly algorithms and then merged together to achieve longer continuity. Re-aligning all the reads back to the draft contigs and recalibrating each sequence base achieves a final consensus. ... -
The Leading All-In-One Vacation Rental Software for Property ManagersThe dashboard and mobile app allows users to manage their marketing, sales, accounting, reporting, payment and communication needs all in one place. As premium partners of channels such as VRBO, Booking.com, Airbnb, Homeaway and Expedia, with the ability to manage advanced setups, no other platform gives you the type of control and peace of mind that a Hostaway user has. The software is designed with teams in mind - it's easy to train staff and keep them happy while improving business at the same time! Hostaway also provides a booking engine, wordpress website and both marketing and sales tools for managing your valuable direct bookings.
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Application to estimate haplotypes and other genetics data, based on maximum likehood approach. It can handle present-absent as well as multiallelic loci.
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HeatmapGenerator is a graphical user interface software program written in C++, R, and OpenGL to create customized gene expression heatmaps from RNA-seq and microarray data in medical research. HeatmapGenerator can also be used to make heatmaps in a variety of other non-medical fields. HeatmapGenerator is peer-reviewed published software (http://www.scfbm.org/content/9/1/30). Please cite: [Khomtchouk et al.: "HeatmapGenerator: High performance RNAseq and microarray visualization software suite to examine differential gene expression levels using an R and C++ hybrid computational pipeline." ...
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This project implements a Cytoscape plugin for viewing and manipulating pathway maps for metabolic models created by the Model SEED (http://www.theseed.org/models). See the "Files" area for README. See Project Homepage for Tutorial.
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vdap-gui
Variant Discovery and Annotation Pipeline
VDAP-GUI: A user-friendly platform for variant discovery and annotation of raw NGS data. -
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HTSeq
Analysing high-throughput sequencing data with Python
This SourceForge page is outdated! HTSeq has been moved to github: https://github.com/simon-anders/htseq General information and documentation on HTSeq; http://www-huber.embl.de/users/anders/HTSeq -
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GSA-SNP is a gene set analysis software that can process SNP data as well as gene and haplotype data.
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olego
OLego – short or long RNA-seq read mapping to discover exon junction
...This also makes it particularly sensitive for discovering small exons. It is implemented in C++ with full support of multiple threading, to allow fast processing of large-scale data. -
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PANorama2.0
PANorama: Panicle phenotyping for Oryza sativa
PANorama is a Linux-compatible, open-source software package for panicle image acquisition, processing, and phenotyping. PANorama 2.0 contains new phenotype measurements and is available for download within the "Files" tab listed above. Installation and user instructions are located within the "Wiki" tab. How to videos are available for streaming at the link below, or for download in the "Files" tab above. Information regarding the project and funding can be found at http://ricediversity.org, and within the corresponding publications and how-to videos: How to videos: http://vimeo.com/cornellricelab PANorama1.0 (Crowell et al. 2014): http://www.plantphysiol.org/content/165/2/479.short PANorama2.0 (Crowell et al. 2016): (http://goo.gl/vQux5Z) -
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Atlas is a suite of variant analysis tools specializing in the separation of true SNPs and insertions and deletions (indels) from sequencing and mapping errors in Whole Exome Capture Sequecing (WECS) data.
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LaNet-vi provides images of large scale networks on a two-dimensional layout. The algorithm is based on the k-core and k-dense (m-core) decomposition. For more details see http://lanet-vi.fi.uba.ar.
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SAT-Assembler
Scalable and accurate targeted gene assembly for large-scale NGS data
SAT-Assembler is a scalable and accurate gene assembly tool for large-scale RNA-Seq and metagenomic data. It recovers genes from gene families of particular interest to biologists with high coverage, low chimera rate, and extremely low memory usage compared with exiting gene assembly tools. Moreover, it is naturally compatible with parallel computing platforms. -
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FieldTrip
The MATLAB software toolbox for MEG and EEG analysis
FieldTrip is the Matlab toolbox for EEG and MEG data. It includes algorithms for simple and advanced analysis, such as importing, preprocessing, time-frequency analysis, source reconstruction, statistical testing and connectivity analysis. -
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(NCS) NEQUIM Contact System
Tool for analyze of interactions in ligand-protein complexes
...Core features include multiple views of vectors, multiple selection options, cluster analysis and generation of interaction vector model. The input could be from PDB format or from files generated by automatic docking softwares AutoDock/Vina or Surflex. -
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iMSAT represents a full update of the vcf2MSAT program. This command line python program allows for a user to use the polymorphism data generated using SAM- and BAM-tools and a .fasta alignment file to search for polymorphic microsatellite markers (MSATs or STRs). By identifying polymorphic makers, rather than simple repeat regions as previous programs have done, iMSAT greatly increases the speed at which polymorphic MSATs that can be identified -- saving researchers precious time and money. ...
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GMOD is a set of interoperable open source software components for visualizing, annotating, and managing biological data. See http://gmod.org for more.
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owl reasoning over big biomedical data
A OWL reasoning framework for the analysis of big biomedical data
A general OWL reasoning framework for the analysis of big biomedical data and implement a MapReduce-based property chain reasoning prototype system. OWL reasoning method is ideally suitable for problems involved complex semantic associations because it is able to infer logical consequences based on a set of asserted rules or axioms. MapReduce framework isused to solve the problem of scalability. In our experiment, we focus on the discovery of associations between Traditional Chinese Medicine (TCM) and Western Medicine (WM).
