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Projects: pypi: TreeToReads

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

Tree to Reads - A python script to to read a tree, resolve polytomies, generate mutations and simulate NGS reads.
5 versions
Latest release: over 10 years ago
8 downloads last month

Enhanced Analysis
Repository Activity:
Repository Owner: Emily Jane McTavish (user) Academic
Science Score: 85/100
Starting Score: 100 points
Bonuses:
  • +20 Academic repository owner
    Repository owned by academic institution
Penalties:
  • -10 PyPI ecosystem
    General-purpose ecosystem
  • -15 No science keywords
    No scientific terms found in keywords/classifiers
  • -10 No science terms in description
    No scientific terms found in description
Very Likely Science (85)

Papers Mentioning TreeToReads 3

10.7717/peerj.3893
Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance
Cited by: 49
Author(s): Ruth Timme, Hugh Rand, Martin Shumway, Eija Trees, Mustafa Simmons, Richa Agarwala, S. Scott Davis, Glenn E. Tillman, Stephanie Defibaugh-Chávez, Heather Carleton, William Klimke, Lee S. Katz
Software Mentions: 5
Published: almost 9 years ago
10.1186/s12859-017-1592-1
TreeToReads - a pipeline for simulating raw reads from phylogenies
Cited by: 14
Author(s): Emily Jane McTavish, James B. Pettengill, Steven R. Davis, Hugh Rand, Errol Strain, Marc W. Allard, Ruth Timme
Software Mentions: 3
Published: over 9 years ago
10.1099/mgen.0.000261
Evaluation of SNP calling methods for closely related bacterial isolates and a novel high-accuracy pipeline: BactSNP
Cited by: 32
Author(s): Dai Yoshimura, Rei Kajitani, Yasuhiro Gotoh, Katsuyuki Katahira, Miki Okuno, Tetsuya Hayashi, Takehiko Itoh
Software Mentions: 3
Published: over 7 years ago