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2020 – today
- 2020
[j13]Dmitry Antipov, Mikhail Raiko, Alla L. Lapidus
, Pavel A. Pevzner:
Metaviral SPAdes: assembly of viruses from metagenomic data. Bioinform. 36(14): 4126-4129 (2020)- [j12]Yulia Kondratenko, Anton I. Korobeynikov, Alla L. Lapidus:
Correction to: CDSnake: Snakemake pipeline for retrieval of annotated OTUs from paired-end reads using CD-HIT utilities. BMC Bioinform. 21(1): 362 (2020) - [j11]Andrey D. Prjibelski, Giuseppe D. Puglia, Dmitry Antipov, Elena Bushmanova, Daniela Giordano, Alla Mikheenko, Domenico Vitale, Alla L. Lapidus:
Extending rnaSPAdes functionality for hybrid transcriptome assembly. BMC Bioinform. 21-S(12): 302 (2020) - [j10]Yulia Kondratenko, Anton I. Korobeynikov, Alla L. Lapidus:
CDSnake: Snakemake pipeline for retrieval of annotated OTUs from paired-end reads using CD-HIT utilities. BMC Bioinform. 21-S(12): 303 (2020) - [j9]Alex L. Mitchell, Alexandre Almeida, Martin Beracochea, Miguel A. Boland, Josephine Burgin, Guy Cochrane, Michael R. Crusoe, Varsha Kale, Simon C. Potter, Lorna J. Richardson, Ekaterina A. Sakharova, Maxim Scheremetjew, Anton I. Korobeynikov, Alexander Shlemov, Olga Kunyavskaya, Alla L. Lapidus, Robert D. Finn:
MGnify: the microbiome analysis resource in 2020. Nucleic Acids Res. 48(Database-Issue): D570-D578 (2020)
2010 – 2019
- 2019
- [j8]Vasily Ershov, Artem Tarasov, Alla L. Lapidus, Anton I. Korobeynikov:
IonHammer: Homopolymer-Space Hamming Clustering for IonTorrent Read Error Correction. J. Comput. Biol. 26(2): 124-127 (2019) - [r1]Andrey D. Prjibelski, Anton I. Korobeynikov, Alla L. Lapidus:
Sequence Analysis. Encyclopedia of Bioinformatics and Computational Biology (3) 2019: 292-322 - 2016
- [j7]Elena Bushmanova, Dmitry Antipov, Alla L. Lapidus, Vladimir Suvorov, Andrey D. Prjibelski:
rnaQUAST: a quality assessment tool for de novo transcriptome assemblies. Bioinform. 32(14): 2210-2212 (2016) - [j6]Dmitry Antipov, Nolan Hartwick, Max W. Shen, Mikhail Raiko, Alla L. Lapidus, Pavel A. Pevzner:
plasmidSPAdes: assembling plasmids from whole genome sequencing data. Bioinform. 32(22): 3380-3387 (2016) - 2015
- [j5]Yana Safonova, Stefano Bonissone, Eugene Kurpilyansky, Ekaterina Starostina, Alla L. Lapidus, Jeremy Stinson, Laura DePalatis, Wendy Sandoval, Jennie Lill, Pavel A. Pevzner:
IgRepertoireConstructor: a novel algorithm for antibody repertoire construction and immunoproteogenomics analysis. Bioinform. 31(12): 53-61 (2015) - [j4]Yana Safonova, Alla L. Lapidus, Jennie Lill:
IgSimulator: a versatile immunosequencing simulator. Bioinform. 31(19): 3213-3215 (2015) - 2014
- [j3]Andrey D. Prjibelski, Irina Vasilinetc, Anton Bankevich, Alexey A. Gurevich, Tatiana Krivosheeva, Sergey Nurk, Son K. Pham, Anton I. Korobeynikov, Alla L. Lapidus, Pavel A. Pevzner:
ExSPAnder: a universal repeat resolver for DNA fragment assembly. Bioinform. 30(12): 293-301 (2014) - 2013
- [j2]Sergey Nurk, Anton Bankevich, Dmitry Antipov, Alexey A. Gurevich, Anton I. Korobeynikov, Alla L. Lapidus, Andrey D. Prjibelski, Alex Pyshkin, Alexander Sirotkin, Yakov Sirotkin, Ramunas Stepanauskas, Scott R. Clingenpeel, Tanja Woyke, Jeffrey S. McLean, Roger Lasken, Glenn Tesler, Max A. Alekseyev, Pavel A. Pevzner:
Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products. J. Comput. Biol. 20(10): 714-737 (2013) - [c1]Sergey Nurk, Anton Bankevich, Dmitry Antipov, Alexey A. Gurevich, Anton I. Korobeynikov, Alla L. Lapidus, Andrey D. Prjibelsky, Alex Pyshkin, Alexander Sirotkin, Yakov Sirotkin, Ramunas Stepanauskas, Jeffrey S. McLean, Roger Lasken, Scott R. Clingenpeel, Tanja Woyke, Glenn Tesler, Max A. Alekseyev, Pavel A. Pevzner:
Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads. RECOMB 2013: 158-170
2000 – 2009
- 2009
- [j1]Andrey Kislyuk, Alexandre Lomsadze, Alla L. Lapidus, Mark Borodovsky:
Frameshift detection in prokaryotic genomic sequences. Int. J. Bioinform. Res. Appl. 5(4): 458-477 (2009)
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