Results for "Tool"

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  • GTN: A genome structure analysis tool http://homepage.fudan.edu.cn/zhouyan/files/2013/09/GNT_manual_v1.0.0.pdf #Tool #Genome #Validation

    Tags: Tool, Genome, Validation

    1478 days ago

  • SynVisio: An Interactive Multiscale Synteny Visualization Tool for McScanX.

    SynVisio lets you explore the results of McScanX a popular synteny and collinearity detection toolkit and generate publication ready images. SynVisio requires two files to run: The simplified gff file that was used as an input for a McScanX query. The collinearity fi...

    Tags: SynVisio, Interactive, Multiscale, Synteny, Visualization, Tool, McScanX

    1397 days ago

  • G-NEST: The Gene NEighborhood Scoring Tool

    The Gene NEighborhood Scoring Tool (G-NEST) combines genomic location, gene expression, and evolutionary sequence conservation data to score putative gene neighborhoods across all window sizes. Primary author of final code = William F. Martin. Example data files are in the separate repository.

    Tags: G-NEST, Gene, NEighborhood, Scoring, Tool

    1280 days ago

  • mixtureS readme file at http://www.cs.ucf.edu/~xiaoman/mixtureS/README_linux.pdf #mixtureS #Tool

    Tags: mixtureS, Tool

    1162 days ago

  • QuasR: Quantification and annotation of short reads in R

    The QuasR package (short for Quantify and annotate short reads in R) integrates the functionality of several R packages (such as IRanges (Lawrence et al. 2013) and Rsamtools) and external software (e.g. bowtie, through the Rbowtie package, and HISAT2, through the Rhisat2 package). The packag...

    Tags: QuasR, Quantification, annotation, short, reads, R, Tool, Reads

    958 days ago

  • R Package for PCA Analysis

    An R package for performing principal component analysis (PCA) of genomics data. The package performs PCA, generates the publication-ready plots, and identifies population-specific outlier individuals. The package can be accessed on GitHub: https://github.com/Devashish13/PopulationStructure

    Tags: PCA, R, Package, Tool

    4 days ago

  • DAVI: Deep learning-based tool for alignment and single nucleotide variant identification

    DAVI consists of models for both global and local alignment and for variant calling. We have evaluated the performance of DAVI against existing state-of-the-art tool sets and found that its accuracy and performance is comparable to existing tools used for bench-marking. We further demonstrate tha...

    Tags: DAVI, deep, alignment, variant, identification, tool, snp

    1108 days ago

  • https://github.com/exascience/elprep #Alignment #tool

    Tags: Alignment, tool

    3178 days ago

  • FQC Dashboard: Integrates FastQC results into a web-based, interactive, and extensible FASTQ quality control tool

    FQC is software that facilitates quality control of FASTQ files by carrying out a QC protocol using FastQC, parsing results, and aggregating quality metrics into an interactive dashboard designed to richly summarize individual sequencing runs. The dashboard groups samples in dropdowns for navigat...

    Tags: FQC, Dashboard, Integrates, FastQC, results, web-based, interactive, extensible, FASTQ, quality, tool

    1234 days ago

  • EXCAVATOR2tool

    EXCAVATOR2 is a collection of bash, R and Fortran scripts and codes that analyses Whole Exome Sequencing (WES) data to identify CNVs. EXCAVATOR2 enhances the identification of all genomic CNVs, both overlapping and non-overlapping targeted exons by integrating the analysis of In-targets and Off- ...

    Tags: Bioinformatics, Analysis, CNV, EXCAVATOR2, tool, NGS

    2675 days ago