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Method: Read clouds uncover variation in complex regions of the human genome
- Alex Bishara,
- Yuling Liu,
- Ziming Weng,
- Dorna Kashef-Haghighi,
- Daniel E. Newburger,
- Robert West,
- Arend Sidow,
- and Serafim Batzoglou
Genome Res. October 2015 25: 1570-1580; Published in Advance August 18, 2015, doi:10.1101/gr.191189.115
...Seq-assembled synthetic long reads (Sharon et al. 2015). There has beenpreviouswork to leverage PacBio sequencing to accurately resolve RNA transcripts (Sharon et al. 2013). With some modeling extensions, RFA can potentially be used to align directly to an available transcriptome (of which many transcripts will have high...
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Method: metaSPAdes: a new versatile metagenomic assembler
- Sergey Nurk,
- Dmitry Meleshko,
- Anton Korobeynikov,
- and Pavel A. Pevzner
Genome Res. May 2017 27: 824-834; Published in Advance March 15, 2017, doi:10.1101/gr.213959.116
...assembly graphprocessing to address themicrodiversity challenge, a new repeat resolution approach that utilizes rare strain variants to improve the consensus assembly of strain mixtures, and fast algorithms forconstructingassemblygraphs anderror-correcting reads. These features contributed to improvements...

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