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: sourmash

https://packages.ecosyste.ms/registries/pypi.org/packages/sourmash

tools for comparing biological sequences with k-mer sketches
67 versions
Latest release: about 1 year ago
10 dependent packages
2,236 downloads last month

Papers Mentioning sourmash 10

Metagenomics workflow for hybrid assembly, differential coverage binning, metatranscriptomics and pathway analysis (MUFFIN)
Cited by: 14
Author(s): Renaud Van Damme, Martin Hölzer, Adrian Viehweger, Bettina Müller, Erik Bongcam‐Rudloff, Christian Brandt
Software Mentions: 8
Published: almost 4 years ago

10.12688/f1000research.19675.1

Large-scale sequence comparisons with sourmash
Cited by: 103
Author(s): Pierce Nt, Luiz Irber, Taylor Reiter, Phillip T. Brooks, Brown Ct
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-021-81668-9

Metagenomic analysis of the cow, sheep, reindeer and red deer rumen
Cited by: 23
Author(s): Laura Glendinning, Buğra Genç, R. J. Wallace, Mick Watson
Software Mentions: 7
Published: almost 4 years ago

10.1128/mSystems.01196-20

Freshwater <i>Chlorobia</i> Exhibit Metabolic Specialization among Cosmopolitan and Endemic Populations
Cited by: 6
Author(s): Sarahi L. Garcia, Maliheh Mehrshad, Moritz Buck, Jackson M. Tsuji, Josh D. Neufeld, Katherine D. McMahon, Stefan Bertilsson, Chris Greening, Sari Peura
Software Mentions: 5
Published: over 3 years ago

10.1186/s13059-020-02066-4

Exploring neighborhoods in large metagenome assembly graphs using spacegraphcats reveals hidden sequence diversity
Cited by: 34
Author(s): C. Titus Brown, Dominik Moritz, Michael P. O’Brien, Felix Reidl, Taylor Reiter, Blair D. Sullivan
Software Mentions: 4
Published: over 4 years ago

10.7717/peerj.10906

LINflow: a computational pipeline that combines an alignment-free with an alignment-based method to accelerate generation of similarity matrices for prokaryotic genomes
Cited by: 2
Author(s): Long Tian, Reza Mazloom, Lenwood S. Heath, Boris A. Vinatzer
Software Mentions: 2
Published: over 3 years ago

10.1186/s13059-019-1809-x

When the levee breaks: a practical guide to sketching algorithms for processing the flood of genomic data
Cited by: 31
Author(s): Will Rowe
Software Mentions: 2
Published: about 5 years ago

10.1093/bioinformatics/btz799

PhyloMagnet: fast and accurate screening of short-read meta-omics data using gene-centric phylogenetics
Cited by: 8
Author(s): Max Emil Schön, Laura Eme, Thijs J. G. Ettema
Software Mentions: 2
Published: about 5 years ago

10.1186/s40168-019-0653-2

Streaming histogram sketching for rapid microbiome analytics
Cited by: 18
Author(s): Will Rowe, Anna Paola Carrieri, Cristina Alcon-Giner, Shabhonam Caim, Alexander Shaw, Kathleen Sim, J. Simon Kroll, Lindsay J. Hall, Edward O. Pyzer‐Knapp, Martyn Winn
Software Mentions: 1
Published: over 5 years ago

10.1128/MRA.00674-20

Complete Genome Sequence of Streptococcus agalactiae Strain 01173, Isolated from Kuwaiti Wild Fish
Cited by: 1
Author(s): Morena Santi, Sharon A. Egan, James A. Leigh, David W. Verner–Jeffreys, Adam Blanchard
Software Mentions: 1
Published: about 4 years ago