Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: EukRep
https://packages.ecosyste.ms/registries/pypi.org/packages/EukRep
Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
8 versions
Latest release: over 4 years ago
37 downloads last month
Papers Mentioning EukRep 14
10.1186/s13059-020-02155-4
Estimating the quality of eukaryotic genomes recovered from metagenomic analysis with EukCCCited by: 51
Author(s): Paul Saary, Alex L. Mitchell, Alex Bateman
Software Mentions: 8
Published: about 4 years ago
10.1371/journal.pone.0244616
Integrating morphology and metagenomics to understand taxonomic variability of Amphisorus (Foraminifera, Miliolida) from Western Australia and IndonesiaCited by: 11
Author(s): Jan Niklas Macher, Martina Prazeres, Sarah Taudien, Jamaluddin Jompa, Aleksey Sadekov, Willem Renema
Software Mentions: 6
Published: almost 4 years ago
10.1186/s40168-021-01031-y
Metagenomic insights into the taxonomy, function, and dysbiosis of prokaryotic communities in octocoralsCited by: 25
Author(s): Tina Keller‐Costa, Asunción Lago‐Lestón, J. Saraiva, Rodolfo Brizola Toscan, Sandra Godinho Silva, Jorge M. S. Gonçalves, Cymon J. Cox, Nikos C. Kyrpides, Ulisses Nunes da Rocha, Rodrigo Costa
Software Mentions: 6
Published: over 3 years ago
10.3389/fmicb.2021.701186
Divergent Genomic Adaptations in the Microbiomes of Arctic Subzero Sea-Ice and Cryopeg BrinesCited by: 9
Author(s): Josephine Z. Rapp, Matthew B. Sullivan, Jody W. Deming
Software Mentions: 6
Published: over 3 years ago
10.1038/s41396-020-00885-8
Comparative genomics reveals new functional insights in uncultured MAST speciesCited by: 17
Author(s): Aurélie Labarre, Lior David, Francisco Latorre, Guy Leonard, François Bucchini, Aleix Obiol, Corinne Cruaud, Michael E. Sieracki, Olivier Jaillon, Patrick Wincker, Klaas Vandepoele, Ramiro Logares, Ramón Massana
Software Mentions: 5
Published: almost 4 years ago
10.3389/fmicb.2020.603692
Shift and Metabolic Potentials of Microbial Eukaryotic Communities Across the Full Depths of the Mariana TrenchCited by: 3
Author(s): Xiaoyu Zhu, Jiwen Liu, Chun-Xu Xue, Jiwei Tian, Xiao‐Hua Zhang
Software Mentions: 5
Published: almost 4 years ago
10.3390/microorganisms8091350
Metagenomic and Metatranscriptomic Study of Microbial Metal Resistance in an Acidic Pit LakeCited by: 14
Author(s): Diana E. Ayala, William D. Burgos, Javier Sánchez España, Estelle Couradeau, Carmen Falagán, Jennifer L. Macalady
Software Mentions: 4
Published: about 4 years ago
10.1186/s40168-021-01085-y
Genetic and behavioral adaptation of Candida parapsilosis to the microbiome of hospitalized infants revealed by in situ genomics, transcriptomics, and proteomicsCited by: 14
Author(s): Patrick T. West, Samantha L. Peters, Matthew R. Olm, Feiqiao Brian Yu, Haley Gause, Yue Clare Lou, Brian Firek, Robyn Baker, Alexander D. Johnson, Michael J. Morowitz, Robert L. Hettich, Jillian F. Banfield
Software Mentions: 3
Published: over 3 years ago
10.1186/s40168-019-0638-1
Genome-resolved metagenomics of eukaryotic populations during early colonization of premature infants and in hospital roomsCited by: 52
Author(s): Matthew R. Olm, Patrick T. West, Brandon Brooks, Brian Firek, Robyn Baker, Michael J. Morowitz, Jillian F. Banfield
Software Mentions: 3
Published: over 5 years ago
10.1128/AEM.01171-18
Metabolic Capability and Phylogenetic Diversity of Mono Lake during a Bloom of the Eukaryotic Phototroph Picocystis sp. Strain MLCited by: 7
Author(s): Blake W. Stamps, Heather S. Nunn, Victoria A. Petryshyn, Ronald S. Oremland, Laurence G. Miller, Michael R. Rosen, Kohen W. Bauer, Katherine Jenny Thompson, Elise M. Tookmanian, Anna R. Waldeck, S. J. Loyd, Hope A. Johnson, Bradley S. Stevenson, William M. Berelson, Frank A. Corsetti, John R. Spear
Software Mentions: 2
Published: about 6 years ago
10.1186/s12859-021-04212-6
Expanding the taxonomic range in the fecal metagenomeCited by: 1
Author(s): Theo R. Allnutt, Alexandra J. Roth‐Schulze, Leonard C. Harrison
Software Mentions: 2
Published: over 3 years ago
10.3389/fmicb.2020.561194
Warming Climate Is Reducing the Diversity of Dominant Microbes in the Largest High Arctic LakeCited by: 11
Author(s): Graham A. Colby, Matti O. Ruuskanen, Kyra A. St. Pierre, Vincent L. St. Louis, Alexandre J. Poulain, Stéphane Aris‐Brosou
Software Mentions: 1
Published: about 4 years ago
10.1128/MRA.00127-20
Metagenome-Assembled Genome Sequences of Three Uncultured <i>Planktomarina</i> sp. Strains from the Northeast Atlantic OceanCited by: 5
Author(s): Matilde Marques, Nuno Borges, Sandra Godinho Silva, Ulisses Nunes da Rocha, Asunción Lago‐Lestón, Tina Keller‐Costa, Rodrigo Costa
Software Mentions: 1
Published: over 4 years ago
10.1186/s40168-020-00808-x
MetaEuk—sensitive, high-throughput gene discovery, and annotation for large-scale eukaryotic metagenomicsCited by: 90
Author(s): Eli Levy Karin, Milot Mirdita, Johannes Söding
Software Mentions: 1
Published: over 4 years ago