Each day, we will present a short summary of interesting papers. Some of these will be considered in further detail later, when time permits. Please feel free to suggest any good paper you come across.
Trinity – Full-length transcriptome assembly from RNA-Seq data without a reference genome - This is an excellent Category D algorithm that we have been using for the last few months for our RNAseq with very satisfactory result. The manuscript just came out in the paper version of Nature Biotech, but electronic version was available from their website for a few months. Previously we had been struggling with Velvet+Oases, which consumed large amount of memory. The memory handling of Trinity is excellent.
Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads
More here
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