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  1. A review of "Large-Scale Search of Transcriptomic Read Sets with Sequence Bloom Trees"

    (This is a review of Large-Scale Search of Transcriptomic Read Sets with Sequence Bloom Trees, Solomon and Kingsford, 2015.)

    In this paper, Solomon and Kingsford present Sequence Bloom Trees (SBTs). SBT provides an efficient method for indexing multiple sequencing datasets and finding in which datasets a query sequence is present …

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  2. New findings from our paper, "These are not the k-mers you are looking for"

    Earlier today, I posted our response to the reviewers' comments on our k-mer counting paper, "These are not the k-mers you are looking for: efficient online k-mer counting using a probabilistic data structure.

    A side note -- I was wondering how many public examples there are of the whole paper submission …

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  3. Response to reviewers for paper, "These are not the k-mers you are looking for"

    A few months back, we received some reviews for our paper on k-mer counting with khmer. After many months, we (mostly Qingpeng Zhang, the first author) has finished revising the paper. Here is our response to reviewers.

    The latest (resubmitted) version of the paper is here, while the version the …

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