NGS Assembly in Geneious Pro™
All sequence assembly follows the same steps in Geneious Pro, whether you're assembling a two strands (forward and reverse) or enormous sequence list documents from 454, SOLiD or Illumina. Select the sequences you want to assemble (include a reference if you have one) and click assembly to get underway immediately.
Next Generation Sequence Assembly
- Visualize arbitrarily large documents – After importing into Geneious, arbitrarily large documents such as raw NGS reads or contig assemblies can be read off disk, for the ultimate in speed of genome browsing.
- Harness multiple cores – The Geneious Assembler™ can utilize as many cores as you have available for rapidly assembling genomes
- Paired-end, mate-paired or fragments? – Whatever your data, Sanger, 454, SOLiD or Illumina, Geneious Pro can assemble it with our fast and accurate Geneious Assembler
- Reference assembly – Assemble hundreds of millions of reads to any size reference genome with the Geneious Assembler (limited by your hardware)
- de novo assembly – Assemble hundred of millions of reads de novo with the Geneious Assembler (limited by your hardware)
- Hybrid assembly – Assemble any mixture of 454, Sanger, SOLiD and Illumina data all at once. Got paired-end data with different spacer sizes? The Geneious assembler's got you covered for that too!
- Fine tune reference sequence assemblies – The accuracy of assemblies is particularly important for downstream analyses such as SNP and INDEL calling. Geneious can automatically improve the quality of the alignment by fine tuning. See how well Geneious' fine tuning compares to other reference assemblers here.
- Separate sequences by barcode/Tag/MID – For barcoded, tagged or multiplexed runs of 454 data, you can separate all reads into their barcoded groups for standard MID tags or your own custom barcodes.
- Assemble to multiple reference sequences – Create a sequence list file with multiple reference sequences and assemble your data to all of them in a single assembly step.
- SNPs and INDEL calling – Follow up your reference or de novo assembly with our 'variation finder' that annotates all SNPs and INDELs. Export the SNP/INDEL table or navigate the genome by the annotation table
- Low/High coverage finder – Find low coverage or high coverage regions on your assembly to identify patterns in your data.
- Geneious Server™ – Data too large for your desktop computer? Consider offloading the jobs using Geneious Server to run industry-leading algorithms like Velvet, BWA, SOAP, TopHat and Bowtie on a workstation computer or a Oracle/Sun Grid Engine cluster with a single click from within Geneious Pro. More information...
