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Downloads & Upgrades: Avadis NGS 1.3 beta; Cufflinks 1.3.0; NextGENe


A beta version of Strand's Avadis NGS 1.3 is now available.

The beta release includes an experiment-specific analysis pipeline for small RNA data; COBWeb, a sequence data alignment algorithm based on the Burrows-Wheeler transform that is designed for gapped alignment of DNA and small RNA reads in FASTA and FASTQ files; and three new RNA-seq quantification and normalization options, among other capabilities.

Cufflinks 1.3.0 is available here.

The release includes improvements to the accuracy of Cuffdiff's isoform switching tests and fixes several bugs.

SoftGenetics has added an assembler for Life Technologies' Ion Torrent PGM sequencer to version 2.2 of its NextGENe software.

The "flow-based" assembler, dubbed Floton, treats homopolymer errors as substitution errors and corrects them during the assembly process. It also condenses sequences into flow calls of individual bases and condenses the number of bases in each flow so that insertions and deletions are converted into substitution errors, which improves the assembly.

The Scan

More Boosters for US

Following US Food and Drug Administration authorization, the Centers for Disease Control and Prevention has endorsed booster doses of the Moderna and Johnson & Johnson SARS-CoV-2 vaccines, the Washington Post writes.

From a Pig

A genetically modified pig kidney was transplanted into a human without triggering an immune response, Reuters reports.

For Privacy's Sake

Wired reports that more US states are passing genetic privacy laws.

Science Paper on How Poaching Drove Evolution in African Elephants

In Science this week: poaching has led to the rapid evolution of tuskless African elephants.