Monthly Archives: August 2012

Building fosmid libraries for ALLPATHS-LG

Posted on August 9, 2012 by AllpathsIain

Fosmid libraries provide long range linking information that can vastly improve the size of an assembly’s scaffolds.  Whilst these optional libraries are not required for small genomes, we do recommend them if you are trying to assemble anything large. However, building … Continue reading →

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Rhino assembly released

Posted on August 7, 2012 by AllpathsIain

The ALLPATHS-LG assembly of Rhino (Ceratotherium simum simum) is now available via NCBI and the Broad Institute ftp site. The basic statistics and location are given below: Contig N50 (kb) Scaffold N50 (Mb) NCBI Accession # Broad FTP 93.0 26.3 AKZM00000000 CerSimSim1.0 Please read our release terms … Continue reading →

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Bacterial example data now available

Posted on August 6, 2012 by AllpathsIain

Don’t have any suitable data yet, but would still like to try out ALLPATHS-LG? In support of our recent hybrid assembly paper, we have provided data suitable for both Illumina only and Illumina + Pacific Biosciences bacterial assemblies.  For something larger you … Continue reading →

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Jerboa assembly released

Posted on August 3, 2012 by AllpathsIain

The ALLPATHS-LG assembly of Jerboa (Jaculus jaculus) is now available via NCBI and the Broad Institute ftp site. The basic statistics and location are given below: Contig N50 (kb) Scaffold N50 (Mb) NCBI Accession # Broad FTP 15.7 22.1 AKZC00000000 JacJac1.0 Please read our release terms and conditions.

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Broad Institute to offer genome sequencing and assembly service for bacterial genomes.

Posted on August 3, 2012 by AllpathsIain

The Broad Institute is preparing to offer a service that takes as input a bacterial DNA sample and provides as output a genome assembly based on the new laboratory and computational methods. For further information please write to AssemblyService@broadinstitute.org.

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