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: ProfileNJ
https://packages.ecosyste.ms/registries/pypi.org/packages/ProfileNJ
profileNJ correct polytomies in tree, using minimum reconciliation (with specietree) cost, and Neighbor-Joining algorithm for clustering
1 version
Latest release: almost 8 years ago
2 downloads last month
Papers Mentioning ProfileNJ 9
10.7554/eLife.56830
Bedrock radioactivity influences the rate and spectrum of mutationCited by: 5
Author(s): Nathanaëlle Saclier, Patrick Chardon, Florian Malard, Lara Konecny‐Dupré, David Eme, Arnaud Bellec, Vincent Breton, Laurent Duret, Tristan Lefébure, Christophe J. Douady
Software Mentions: 4
Published: almost 4 years ago
10.1093/molbev/msz150
Advances and Applications in the Quest for OrthologsCited by: 68
Author(s): Natasha Glover, Christophe Dessimoz, Ingo Ebersberger, Kristoffer Forslund, Toni Gabaldón, Jaime Huerta-Cepas, Maria Jesus Martin, Matthieu Muffato, Mateus Patrício, Cécile Pereira, Alan Wilter Sousa da Silva, Yan Wang, Erik L. L. Sonnhammer, Paul D. Thomas
Software Mentions: 3
Published: about 5 years ago
10.1038/srep33782
The nuclear genome of Rhazya stricta and the evolution of alkaloid diversity in a medically relevant clade of ApocynaceaeCited by: 22
Author(s): Jamal S. M. Sabir, Robert K. Jansen, Dhivya Arasappan, Virginie Calderon, Emmanuel Noutahi, Chunfang Zheng, Seongjun Park, Meshaal J. Sabir, Mohammed N. Baeshen, Nahid H. Hajrah, Mohammad A. Khiyami, Nabih A. Baeshen, Abdullah Y. Obaid, Abdulrahman L. Al-Malki, David Sankoff, Nadia El-Mabrouk, Tracey A. Ruhlman
Software Mentions: 3
Published: almost 8 years ago
10.1186/s12864-018-4466-7
Phylogenetic signal from rearrangements in 18 Anopheles species by joint scaffolding extant and ancestral genomesCited by: 11
Author(s): Yoann Anselmetti, Wandrille Duchemin, Éric Tannier, Cédric Chauve, Sèverine Bérard
Software Mentions: 2
Published: over 6 years ago
10.1371/journal.pone.0159559
Efficient Gene Tree Correction Guided by Genome EvolutionCited by: 39
Author(s): Emmanuel Noutahi, Magali Semeria, Manuel Lafond, Jonathan Séguin, Bastien Boussau, Laurent Guéguen, Nadia El-Mabrouk, Éric Tannier
Software Mentions: 1
Published: about 8 years ago
10.1186/s12864-018-4455-x
GATC: a genetic algorithm for gene tree construction under the Duplication-Transfer-Loss model of evolutionCited by: 1
Author(s): Emmanuel Noutahi, Nadia El-Mabrouk
Software Mentions: 1
Published: over 6 years ago
10.1186/s13015-017-0120-1
Gene tree parsimony for incomplete gene trees: addressing true biological lossCited by: 25
Author(s): Shamsuzzoha Bayzid, Tandy Warnow
Software Mentions: 1
Published: over 6 years ago
10.1186/1471-2164-16-S10-S9
Reconstruction of an ancestral Yersinia pestisgenome and comparison with an ancient sequenceCited by: 7
Author(s): Wandrille Duchemin, Vincent Daubin, Éric Tannier
Software Mentions: 1
Published: almost 9 years ago
10.1186/s13015-019-0161-8
Non-parametric correction of estimated gene trees using TRACTIONCited by: 4
Author(s): Sarah Christensen, Erin K. Molloy, Pranjal Vachaspati, Ananya Yammanuru, Tandy Warnow
Software Mentions: 1
Published: over 4 years ago