Results for "identify"

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  • CHSMiner: a GUI tool to identify chromosomal homologous segments

    Background The identification of chromosomal homologous segments (CHS) within and between genomes is essential for comparative genomics. Various processes including insertion/deletion and inversion could cause the degeneration of CHSs. Results Here we present a Java software CHSMiner tha...

    Tags: CHSMiner, GUI, tool, identify, chromosomal, homologous, segments

    2322 days ago

  • Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence

    Modern genome sequencing strategies are highly sensitive to contamination making the detection of foreign DNA sequences an important part of analysis pipelines. Here we use Taxoblast, a simple pipeline with a graphical user interface, for the post-assembly detection of contaminating sequences in ...

    Tags: Taxoblast, pipeline, identify, contamination, genomic, sequence

    2318 days ago

  • alien_index : identify potential contaminants or horizontally transferred genes in transcriptomes.

    identify potential contaminants or horizontally transferred genes in transcriptomes. algorithm is based on alogorithm described in the following: Gladyshev, Eugene A., Matthew Meselson, and Irina R. Arkhipova. "Massive horizontal gene transfer in bdelloid rotifers." science 320.5880 (2008): 1210...

    Tags: alien_index, identify, potential, contaminants, horizontally, transferred, genes, transcriptomes

    1517 days ago

  • McClintock: Meta-pipeline to identify transposable element insertions using next generation sequencing data

    an integrated bioinformatics pipeline for the detection of TE insertions in whole-genome shotgun data, called McClintock (https://github.com/bergmanlab/mcclintock), which automatically runs and standardizes output for multiple TE detection methods. We demonstrate the utility of McClintock by eval...

    Tags: McClintock, Meta-pipeline, identify, transposable, element, insertions, next, generation, sequencing, data

    1249 days ago

  • GEO2R: compare two or more groups of Samples

    GEO2R to compare two or more groups of Samples in order to identify genes that are differentially expressed across experimental conditions.

    Tags: GEO2R, compare, groups, Samples, identify, genes, differentially, expressed, across, experimental, conditions

    1195 days ago

  • doubletrouble: identify duplicated genes from whole-genome protein sequences and classify

    doubletrouble aims to identify duplicated genes from whole-genome protein sequences and classify them based on their modes of duplication. The duplication modes are i. segmental duplication (SD); ii. tandem duplication (TD); iii. proximal duplication (PD); iv. transposed duplication (TRD) and; v....

    Tags: doubletrouble, identify, duplicated, genes, whole-genome, protein, sequences, classify

    24 days ago