Variant Analysis Software


Lasergene Genomics Suite


Lasergene Genomics Suite's variant analysis software provides tools to simplify the discovery and analysis of variants in multiplexed data generated by all major next-gen sequencing platforms including Roche 454, Illumina, Ion Torrent, and Pacific Biosciences. Our variant analysis software enables you to:


  • Quickly and easily assemble large data sets from all major next-gen technologies on a desktop computer—check out our benchmarks below
  • Analyze variants using live, interactive views and comprehensive filtering tools
  • Compare variants to dbNSFP, dbSNP, COSMIC, and GERP databases during assembly for all major model organisms
  • Perform large-scale comparisons of variants across individuals and groups of indivduals, and determine the level of disruption to each gene caused by the variants present






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For more information on using Lasergene Genomics Suite's variant analysis software for your large-scale, multi-sample variant projects, please see the following two videos, which demonstrate an assembly of the exomes of three individuals, and the subsequent analysis and comparision of variants across the group.


 
Lasergene Genomics Suite Reference-Guided Genome Alignment Benchmarks for Variant Analysis
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 Hg19+dbSNP 27 163 12,390 76 459X 2 Hrs.
Ion AmpliSeq™ Cancer Panel (3 multiplexed data sets)Data provided by Ion Torrent. Ion Torrent Hg19+dbSNP 3,101 3 99 85 500X 24 Min.
Fluidigm® Access Array System (2 multiplexed data sets)Data provided by Pacific Biosciences. Pac Bio Fluidigm human amplicons 0.1 < 1 7 180 500X 1 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.

Next-Gen Software
For All Major Sequencing Technologies