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Downloads and Upgrades: Lab7, GenBank 196.0, OpenEye Toolkits v2013.June, and more

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Lab7 Systems has launched a beta version of its next-generation DNA sequence data workflow management software platform. The company is seeking feedback from beta users that will further development of its software which is expected to launch fully later this year.

The beta release includes a set of pipeline creation and management tools as well as reporting and visualization capabilities. The system also tracks data as it moves from the sequencing instrument through the quality control steps, mapping pipelines, and specific analyses.


GenBank 196.0 is now available via ftp from the National Center for Biotechnology Information.

Uncompressed flatfiles require roughly 600 gigabytes for sequence files only. The ASN.1 data require approximately 495 GB.


OpenEye Scientific Software has released OpenEye Toolkits v2013.June.

This release includes the C++, Python, .NET, and Java versions of the toolkits.

The full release notes are available here.

The toolkits can be downloaded here.


Ensembl release 72 is available here.

This release includes updated patches for the human assembly and updated mitochondrial sequence and annotation for several species including alpaca, lamprey, platyfish, and xenopus among other updates.


The genome browser group at the University of California, Santa Cruz has compiled several of its most popular tools for Linux and Mac operating systems to make it easier for researchers to download and use.

The list of tools for use with Linux 64-bit machines is available here.

The list of tools for Mac 64-bit machines is available here.

There's also a set of instructions, available here, for users who prefer to compile the tools for themselves as well as those who use machines other than Linux and Mac.


Roche has launched NimbleDesign, a new web-based tool that lets customers design optimized SeqCap EZ Choice Libraries for target enrichment.

Among other features, the tool lets users review designs before purchasing as well as develop multiple designs simultaneously.

The Scan

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Slate looks into the use of polygenic risk scores in embryo screening.

PLOS Papers on Methicillin-Resistant Staphylococcus, Bone Marrow Smear Sequencing, More

In PLOS this week: genomic analysis of methicillin-resistant Staphylococcus pseudintermedius, archived bone marrow sequencing, and more.