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Downloads and Upgrades: OpenEye Toolkits v2012.Oct; Ensembl Genomes; and Bowtie 2 2.0.1

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OpenEye has released OpenEye Toolkits v2012.Oct.

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

The full release notes are available here.

The toolkits can be downloaded here.


Release 16 of Ensembl Genomes is available here.

The release includes a migration to version 69 of the Ensembl software; the addition of several new species in Ensembl plants and Ensembl metazoan; improvements to the wheat assembly; and the ability to highlight annotations in gene trees among other updates.


Bowtie 2 2.0.1 is available here.

The release fixes several bugs as well as an issue that would cause Bowtie 2 to use excessive amounts of memory for closely matching and highly repetitive reads under some circumstances, among other improvements.


Filed under

The Scan

Pig Organ Transplants Considered

The Wall Street Journal reports that the US Food and Drug Administration may soon allow clinical trials that involve transplanting pig organs into humans.

'Poo-Bank' Proposal

Harvard Medical School researchers suggest people should bank stool samples when they are young to transplant when they later develop age-related diseases.

Spurred to Develop Again

New Scientist reports that researchers may have uncovered why about 60 percent of in vitro fertilization embryos stop developing.

Science Papers Examine Breast Milk Cell Populations, Cerebral Cortex Cellular Diversity, Micronesia Population History

In Science this week: unique cell populations found within breast milk, 100 transcriptionally distinct cell populations uncovered in the cerebral cortex, and more.