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component: main
debian_mangled_uversion: 4.0.0+really3.15.5
debian_uversion: 4.0.0+really3.15.5+dfsg
distribution: debian
last_check: 2025-10-28 05:20:05.345056
metadata: Bug-Database: https://github.com/ablab/spades/issues Bug-Submit: https://github.com/ablab/spades/issues/new Reference: - Author: > Anton Bankevich and Sergey Nurk and Dmitry Antipov and Alexey A. Gurevich and Mikhail Dvorkin and Alexander S. Kulikov and Valery M. Lesin and Sergey I. Nikolenko and Son Pham and Andrey D. Prjibelski and Alexey V. Pyshkin and Alexander V. Sirotkin and Nikolay Vyahhi and Glenn Tesler and Max A. Alekseyev and Pavel A. Pevzner Title: > SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing Journal: Journal of Computational Biology Year: 2012 Volume: 19 Number: 5 Pages: 455-477 DOI: 10.1089/cmb.2012.0021 PMID: 22506599 URL: http://online.liebertpub.com/doi/abs/10.1089/cmb.2012.0021 eprint: http://online.liebertpub.com/doi/pdfplus/10.1089/cmb.2012.0021 - Author: > Sergey Nurk and Anton Bankevich and Dmitry Antipov and Alexey Gurevich and Anton Korobeynikov and Alla Lapidus and Andrey Prjibelsky and Alexey Pyshkin and Alexander Sirotkin and Yakov Sirotkin and Ramunas Stepanauskas and Jeffrey McLean and Roger Lasken and Scott Clingenpeel and Tanja Woyke and Glenn Tesler and Max Alekseyev and Pavel Pevzner Title: Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads Journal: Lecture Notes in Computer Science Year: 2013 Volume: 7821 Pages: 158-170 DOI: 10.1007/978-3-642-37195-0_13 URL: http://link.springer.com/chapter/10.1007%2F978-3-642-37195-0_13 - Author: > Prjibelski, Andrey D. and Vasilinetc, Irina and Bankevich, Anton and Gurevich, Alexey and Krivosheeva, Tatiana and Nurk, Sergey and Pham, Son and Korobeynikov, Anton and Lapidus, Alla and Pevzner, Pavel A. Title: > ExSPAnder: a universal repeat resolver for DNA fragment assembly Journal: Bioinformatics Volume: 30 Number: 12 Pages: i293-i301 Year: 2014 Month: 06 ISSN: 1367-4803 DOI: 10.1093/bioinformatics/btu266 URL: https://doi.org/10.1093/bioinformatics/btu266 eprint: "http://oup.prod.sis.lan/bioinformatics/article-pdf/ 30/12/i293/1089266/btu266.pdf" - Author: > Vasilinetc, Irina and Prjibelski, Andrey D. and Gurevich, Alexey and Korobeynikov, Anton and Pevzner, Pavel A. Title: > Assembling short reads from jumping libraries with large insert sizes Journal: Bioinformatics Volume: 31 Number: 20 Pages: 3262-3268 Year: 2015 Month: 06 ISSN: 1367-4803 DOI: 10.1093/bioinformatics/btv337 URL: https://doi.org/10.1093/bioinformatics/btv337 eprint: "http://oup.prod.sis.lan/bioinformatics/article-pdf/\ 31/20/3262/17087738/btv337.pdf" - Author: > Antipov, Dmitry and Hartwick, Nolan and Shen, Max and Raiko, Mikhail and Lapidus, Alla and Pevzner, Pavel A. Title: > plasmidSPAdes: assembling plasmids from whole genome sequencing data Journal: Bioinformatics Volume: 32 Number: 22 Pages: 3380-3387 Year: 2016 Month: 07 ISSN: 1367-4803 DOI: 10.1093/bioinformatics/btw493 URL: https://doi.org/10.1093/bioinformatics/btw493 eprint: "http://oup.prod.sis.lan/bioinformatics/article-pdf/\ 32/22/3380/16920848/btw493.pdf" - Author: > Nurk, Sergey and Meleshko, Dmitry and Korobeynikov, Anton and Pevzner, Pavel A. Title: > metaSPAdes: a new versatile metagenomic assembler Volume: 27 Number: 5 Pages: 824-834 Year: 2017 DOI: 10.1101/gr.213959.116 URL: http://genome.cshlp.org/content/27/5/824.abstract eprint: http://genome.cshlp.org/content/27/5/824.full.pdf+html Journal: Genome Research - Author: > Bushmanova, Elena and Antipov, Dmitry and Lapidus, Alla and Prjibelski, Andrey D Title: > rnaSPAdes: a de novo transcriptome assembler and its application to RNA-Seq data Journal: GigaScience Volume: 8 Number: 9 Year: 2019 Month: 09 ISSN: 2047-217X DOI: 10.1093/gigascience/giz100 URL: https://doi.org/10.1093/gigascience/giz100 eprint: "http://oup.prod.sis.lan/gigascience/article-pdf/\ 8/9/giz100/29533229/giz100.pdf" - Author: > Meleshko, Dmitry and Mohimani, Hosein and Traccana, Vittorio and Hajirasouliha, Iman and Medema, Marnix H and Korobeynikov, Anton and Pevzner, Pavel A Title: > BiosyntheticSPAdes: Reconstructing Biosynthetic Gene Clusters From Assembly Graphs Year: 2019 DOI: 10.1101/gr.243477.118 URL: > http://genome.cshlp.org/content/early/2019/06/03/gr.243477.118.abstract eprint: "http://genome.cshlp.org/content/early/\ 2019/06/03/gr.243477.118.full.pdf+html" Journal: Genome Research Registry: - Name: SciCrunch Entry: SCR_000131 - Name: conda:bioconda Entry: spades - Name: OMICtools Entry: OMICS_01502 - Name: bio.tools Entry: spades Repository: https://github.com/ablab/spades.git Repository-Browse: https://github.com/ablab/spades
release: sid
source: spades
status: newer package available
upstream_url: https://api.github.com/repos/ablab/spades/tarball/refs/tags/v4.2.0
upstream_version: 4.2.0
version: 4.0.0+really3.15.5+dfsg-3
watch_file: 
Version: 5

Template: Github
Owner: ablab
Project: spades
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Dversion-Mangle: auto