CS 681 Paper Presentations

Assembly algorithms

• Haplotype-resolved de novo assembly with phased assembly graphs
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Genomic Variation

• https://academic.oup.com/gigascience/article/9/10/giaa101/5918863
• https://academic.oup.com/bioinformatics/article/32/19/3021/2196631
• SMUFIN
  

Graph aligners & genotypers

• https://link.springer.com/article/10.1186/s13059-020-02168-z

Hardware accelerators

• Darwin
• Darwin-WGA
• https://ieeexplore.ieee.org/abstract/document/9180620
• https://arxiv.org/abs/2009.09787
• https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-020-03685-1
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Large-scale genome studies

Misc

• ALeS: Adaptive-length spaced-seed design
• lra: the Long Read Aligner for Sequences and Contigs