genome-analysis
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De novo genome assembly and multisample variant calling
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Mar 28, 2019 - C
RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genomes) in real-time without basecalling. Described by Firtina et al. (published at https://academic.oup.com/bioinformatics/article/39/Supplement_1/i297/7210440).
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Dec 9, 2024 - C
BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy while reducing the memory space usage of two important applications: 1) finding overlapping reads and 2) read mapping. Described by Firtina et al. (published in NARGAB https://doi.org/10.1093/nargab/lqad004)
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May 10, 2023 - C
Finding Maximal Exact Matches (MEMs) using a Sampled LCP Array
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Mar 7, 2024 - C
MRA, A Novel Multi-head Algorithm to Discover all Tandem Repeats in One Scan of DNA Sequences.
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Feb 2, 2023 - C
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