Projects: pypi: stringMLST
https://packages.ecosyste.ms/registries/pypi.org/packages/stringMLST
Fast k-mer based tool for alignment and assembly-free multi locus sequence typing (MLST) directly from genome sequencing reads.
15 versions
Latest release: almost 2 years ago
8 downloads last month
Enhanced Analysis
Repository Activity:
Repository Owner:
Jordan Lab (organization)
The Jordan Lab @ Georgia Tech | Bioinformatics and Computational Genomics Academic
The Jordan Lab @ Georgia Tech | Bioinformatics and Computational Genomics Academic
README Analysis:
Science Score: 100/100
Starting Score: 100 points
Bonuses:
-
+20
Academic repository owner
Repository owned by academic institution -
+15
Institutional repository owner
Repository owned by research institution -
+10
Educational website
Repository owner has educational domain website -
+10
Science terms in README
5 scientific terms found in README
Penalties:
-
-10
PyPI ecosystem
General-purpose ecosystem -
-15
No science keywords
No scientific terms found in keywords/classifiers
Very Likely Science (100)
Papers Mentioning stringMLST 11
10.1099/mgen.0.000271
A global to local genomics analysis of Clostridioides difficile ST1/RT027 identifies cryptic transmission events in a northern Arizona healthcare networkCited by: 5
Author(s): Charles H. D. Williamson, Nathan E. Stone, Amalee E. Nunnally, Heidie Hornstra, David M. Wagner, Chandler C. Roe, Adam J. Vazquez, Nivedita Nandurkar, Jacob Vinocur, Joel Terriquez, John D. Gillece, Jason Travis, Darrin Lemmer, Paul Keim, Jason W. Sahl
Software Mentions: 5
Published: about 6 years ago
10.3390/microorganisms8081152
Population Structure of Non-ST6 Listeria monocytogenes Isolated in the Red Meat and Poultry Value Chain in South AfricaCited by: 11
Author(s): Itumeleng Matle, Thendo Mafuna, Evelyn Madoroba, Khanyisile R. Mbatha, Kudakwashe Magwedere, Rian Pierneef
Software Mentions: 5
Published: almost 5 years ago
10.7717/peerj.5098
MLSTar: automatic multilocus sequence typing of bacterial genomes in RCited by: 18
Author(s): Ignacio Ferrés, Gregorio Iraola
Software Mentions: 3
Published: about 7 years ago
10.1099/mgen.0.000146
MentaLiST – A fast MLST caller for large MLST schemesCited by: 36
Author(s): Pedro Feijão, Hua-Ting Yao, Daniel Fornika, Jennifer L. Gardy, William Hsiao, Cédric Chauve, Leonid Chindelevitch
Software Mentions: 3
Published: over 7 years ago
10.1099/mgen.0.000124
Comparison of classical multi-locus sequence typing software for next-generation sequencing dataCited by: 27
Author(s): Andrew J. Page, Nabil-Fareed Alikhan, Heather Carleton, Torsten Seemann, Jacqueline A. Keane, Lee S. Katz
Software Mentions: 3
Published: about 8 years ago
10.1186/s12864-019-5723-0
BacTag - a pipeline for fast and accurate gene and allele typing in bacterial sequencing data based on database preprocessingCited by: 2
Author(s): Lusine Khachatryan, M. E. M. Kraakman, A.T. Bernards, Jeroen F. J. Laros
Software Mentions: 3
Published: about 6 years ago
10.1186/s13071-019-3770-7
Whole-genome sequencing of ocular Chlamydia trachomatis isolates from Gadarif State, SudanCited by: 9
Author(s): Abdulazeem Abdulsalam Ibrahim Alkhidir, Martin J. Holland, Wafa Ibrahim Elhag, Charlotte A. Williams, Judith Breuer, Abdah Elfatih Elemam, Khalid Mohamed Khalid El Hussain, Mohammed E. H. Ournasseir, Harry Pickering
Software Mentions: 2
Published: over 5 years ago
10.3390/genes10121007
Genomic Diversity of Common Sequence Types of Listeria monocytogenes Isolated from Ready-to-Eat Products of Animal Origin in South AfricaCited by: 8
Author(s): Itumeleng Matle, Rian Pierneef, Khanyisile R. Mbatha, Kudakwashe Magwedere, Evelyn Madoroba
Software Mentions: 1
Published: over 5 years ago
10.1080/21505594.2021.1947448
Whole genome analysis unveils genetic diversity and potential virulence determinants in <i>Vibrio parahaemolyticus</i> associated with disease outbreak among cultured <i>Litopenaeus vannamei</i> (Pacific white shrimp) in IndiaCited by: 12
Author(s): Kattapuni Suresh Prithvisagar, Ballamoole Krishna Kumar, Takao Kodama, Praveen Rai, Tetsuya Iida, Iddya Karunasagar
Software Mentions: 1
Published: almost 4 years ago
10.1186/s13071-019-3743-x
Impact of a single round of mass drug administration with azithromycin on active trachoma and ocular Chlamydia trachomatis prevalence and circulating strains in The Gambia and SenegalCited by: 7
Author(s): Emma Harding-Esch, Martin J. Holland, Jean-François Schémann, Ansumana Sillah, Boubacar Sarr, Linus Christerson, Harry Pickering, Sandra Molina-Gonzalez, Isatou Sarr, Aura Andreasen, David Jeffries, Chris Grundy, David Mabey, Björn Herrmann, Robin L. Bailey
Software Mentions: 1
Published: almost 6 years ago
10.1186/s12859-019-2887-1
STRAIN: an R package for multi-locus sequence typing from whole genome sequencing dataCited by: 0
Author(s): Mattia Dalsass, Margherita Bodini, Christophe Lambert, Marie-Cécile Mortier, Marco Romanelli, Duccio Medini, Alessandro Muzzi, Alessandro Brozzi
Software Mentions: 1
Published: over 5 years ago