Results for "Data"

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  • karyoploteR: plot whole genomes with arbitrary data

    karyoploteR is an R package to create karyoplots, that is, representations of whole genomes with arbitrary data plotted on them. It is inspired by the R base graphics system and does not depend on other graphics packages. The aim of karyoploteR is to offer the user an easy way to plot data a...

    Tags: karyoploteR, plot, whole, genomes, NGS, arbitrary, data, karyotype

    1913 days ago

  • Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

    Automatic Filtering, Trimming, Error Removing and Quality Control for fastq dataAfterQC can simply go through all fastq files in a folder and then output three folders: good, bad and QC folders, which contains good reads, bad reads and the QC results of each fastq fi...

    Tags: Automatic, Filtering, Trimming, Error, Removing, Quality, Control, fastq, data

    2327 days ago

  • poRe: an R package for the visualization and analysis of nanopore sequencing data

    Motivation: The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the bioinformatics community will need to design and build a s...

    Tags: poRe, R, package, visualization, analysis, nanopore, sequencing, data

    2317 days ago

  • RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data

    RITA is a standalone software package and Web server for taxonomic assignment of metagenomic sequence reads. By combining homology predictions from BLAST or UBLAST with compositional classifications from a Naive Bayes classifier, RITA is able to achieve very high accuracy on short reads. Unlike o...

    Tags: Rapid, identification, high-confidence, taxonomic, assignments, metagenomic, data, RITA

    2313 days ago

  • Scripts for the analysis of HGT in genome sequence data.

    Scripts for the analysis of HGT in genome sequence data

    Tags: scripts, analysis, HGT, genome, sequence, data

    2311 days ago

  • MinION_GC: An R script to do some QC on MinION data

    Other tools focus on getting data out of the fastq or fast5 files, which is slow and computationally intensive. The benefit of this approach is that it works on a single, small, .txt summary file. So it's a lot quicker than most other things out there: it takes about a minute to analyse a 4GB flo...

    Tags: MinION_GC, R, script, QC, MinION, data

    2307 days ago

  • GPOPSIM: a simulation tool for whole-genome genetic data

    GPOPSIM is a simulation tool for pedigree, phenotypes, and genomic data, with a variety of population and genome structures and trait genetic architectures. It provides flexible parameter settings for a wide discipline of users, especially can simulate multiple genetically correlated traits with ...

    Tags: GPOPSIM, simulation, tool, whole-genome, genetic, data

    2262 days ago

  • BioCircos.js is an open source interactive Javascript library to interactive display biological data on the web

    BioCircos.js is an open source interactive Javascript library which provides an easy way to interactive display biological data on the web. It implements a raster-based SVG visualization using the open source Javascript framework jquery.js. BioCircos.js is multiplatform a...

    Tags: BioCircos.js, open, source, interactive, Javascript, library, interactive, display, biological, data, web

    2260 days ago

  • Heap: a highly sensitive and accurate SNP detection tool for low-coverage high-throughput sequencing data

    Heap, that enables robustly sensitive and accurate calling of SNPs, particularly with a low coverage NGS data, which must be aligned to the reference genome sequences in advance. To reduce false positive SNPs, Heap determines genotypes and calls SNPs at each site except for sites at the both end ...

    Tags: Heap, sensitive, accurate, SNP, detection, tool, low-coverage, high-throughput, sequencing, data

    2170 days ago

  • MIX: Combining multiple assemblies from NGS data

    Mix is a tool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph where vertices represent extremities of contigs and edges represent ...

    Tags: MIX, Combining, multiple, assemblies, NGS, data, Tools

    2151 days ago