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Reference-Guided Genome Assembly

DNASTAR's Lasergene Genomics Suite software assembles data from all major next-gen sequencing platforms against a reference sequence with unsurpassed ease and speed. Features of the Lasergene Genomics Suite software include:

  • Quick and accurate assembly of human or other large eukaryotic genomes against a genomic template on a desktop computer - check out our benchmarks below.
  • The ability to assemble virtually any next-gen sequencing platform, including Roche 454, Illumina, Ion Torrent, Pacific Biosciences, ABI SOLiD, Helicos, or Sanger data
  • An interactive, data-rich SNP report, including probabilities and genotypes determined with Bayesian statistics as well as dbSNP/COSMIC/GERP associations
  • The option to generate output of the finished assembly in BAM format
    • For more information on using Lasergene Genomics Suite for your reference-guided assembly projects, this brief video gives an overview of the workflow:

     

    Request a fully-functional, free trial of Lasergene Genomics Suite.

     

     

    Lasergene Genomics Suite Reference-Guided Genome Assembly Benchmarks
    Data Set
    		 Sequence Technology
    Reference Sequence
    Genome Size (Mbp)
    Number of Reads (M)
    Number of Bases (Mbp)
    		 Read Length (bp) Coverage

    Assembly Time**

    Human Genome* Illumina Hg19+dbSNP 3,101 3,523 112,738 32 36X 23 Hrs.
    8 Human Exomes* (multiplex) Illumina

    Hg19+dbSNP

    		 27 1,268 12,047 76 446X 14 Hrs
    Human Exome*
    Illumina
    27
    163
    12,390
    		 76
    459X
    2 Hrs.
    Ion AmpliSeq™ Cancer Panel (3 multiplexed data
    sets) Data provided by Ion Torrent.     		Ion Torrent
    3,101
    3
    99
    		 85 500X
    24 Min.
    Fluidigm® Access Array System (2 multiplexed data
    sets) Data provided by Pacific Biosciences.     		Pacific Biosciences Fluidigm human amplicons 0.1 < 1 7 180 500X 1 Min.
    Rice Genome* Illumina IRGSP build 4 + dbSNP 382 272 8,708 32 23X 1.5 Hrs.
    Arabidopsis Genome* Illumina TAIR10 120 67 5,000 75 42X 1 Hr.
    Aspergillus Genome* Roche 454
    ASM265v1
    29
    2
    1,055
    		 450 36X
    38 Min
    K-12 E. coli Genome*
    Illumina
    MG1655
    5
    2.5
    250
    100
    50X
    1 Min.
    "Deep" K-12 E. coli Genome*
    Illumina
    MG1655
    5
    45
    4,539
    100
    908X
    28 Min.
    K-12 E. coli Genome (merge pair data) Data provided by Ion Torrent.
    Merged pair data consists of overlapping forward and reverse reads.
    SeqMan NGen aligns these reads and merges them into a single consensus.
    Ion Torrent
    DH10B

    5

    3 M
    387
    115
    77X
    7 Min.
    K-12 E. coli Genome*
    Roche 454
    MG1655
    5
    1.5 M
    606
    400
    121X
    3 Min.
    K-12 E. coli
    GenomeSOLiD data is imported as a BAM file.
    SOLiD
    DH10B
    4.6
    NA
    NA
    NA
    336X
    10 Min.

     

    *Data sets for these projects were obtained from NCBI's Short Read Archive.

    **Assembly times were calculated using a computer with a 4-Disk RAID-0.