Results for "De Bruijn graph"

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  • Prepare for Coding Interview !

    This is a comprehensive guide to prepare for your next coding interview. It's great f...view_experience_at_google/ #bottom-comments. 1. Data structures 2. Trees and Graph algorithms 3. Dynamic Progra...

    808 days ago

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  • Data Mining in Bioinformatics

    Data mining, the extraction of hidden predictive informati...t be your strong point. Excel is fine for creating graphs. If you’re serious abo...age informatics and scalable querying and mining of graphs.For more detail visit: ...

    3909 days ago

  • Bioinformatics Algorithms

    An algorithm is a computable set of steps to achieve a des...amic programming The shortest path in a weighted graph can be found by using the sho...many problems such as the maximum flow for directed graphs, notably by using the simple...

    3909 days ago

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  • Genome alignment with graph data structures: a comparison http://www.biomedcentral.com/1471-2105/15/99 #Genome #Alignment #Data #Graph

    3495 days ago

  • De #Bruijn #Graph #assembly http://www.cs.jhu.edu/~langmea/resources/lecture_notes/assembly_dbg.pdf

    2829 days ago

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  • BEReX : Biomedical Entity-Relation eXplorer

    BEReX is a new biomedical knowledge integration, search, and exploration tool. BEReX...keywords and BEReX returns a sub-network matching the keywords. The resulting graph can be explored interactively...

    3803 days ago

  • Scalpel

    ...When Scalpel assembles an exon, it collects reads that map to that exon (including partial matches), splits them into k-mers, and creates a de Bruijn graph to span the exon; however, if...

    3509 days ago

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  • Estimate Genome Size

    # Count k-mer occurrence using Jellyfish 2.2.6 jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? sread_1.fastq sread_2.fastq # points for a histogram jellyfish histo -o 19mer_out.histo 19mer_out #Plot results using R ##load the data into dataframe19 dataframe19

    2227 days ago

  • Estimate Genome Size with Jellyfish and R

    jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? /common/Tutorial/Genome_estimation/sample_read_1.fastq /common/Tutorial/Genome_estimation/sample_rea...

    2209 days ago

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  • Genome Assembly Tutorial

    If genomes were completely random sequences in a statistical sense, 'overlap-consensus-layout' method would have been enough to assemble large genomes from Sanger reads. In contrast, real genomes often have long repetitive regions, and they are hard to assemble using overlap-consensus-layout appr...

    Tags: Bioinformatics, Analysis, Assembly, Genome, De Bruijn graph

    2656 days ago

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  • Comment on "Sibelia: A comparative genomics tool"

    ...e 2. Dot file with resulting de Bruijn graph All these files are describ...the computation. Resulting de Bruijn graph ------------------------- F...ormed with the genome behind the graph model. Suppose that somewhe...--------------- In "Sibelia" de Bruijn graph is constructed (N + 1)...

    1248 days ago

  • Comment on "SPAdes"

    Common usage  SPAdes: de Bruijn graph based assembler The last assembler we will run is SPAdes. SPAdes is different from the other assemblers in that it generates a final ass...

    2307 days ago

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