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: picardtools

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

python3 interface with Picard Tools from Broad institute
4 versions
Latest release: about 2 years ago
51 downloads last month

Papers Mentioning picardtools 14

10.1186/s13058-020-01379-3

Acquired mutations and transcriptional remodeling in long-term estrogen-deprived locoregional breast cancer recurrences
Cited by: 19
Author(s): Nolan Priedigkeit, Kai Ding, William Horne, Jay K. Kolls, Tian Du, Peter C. Lucas, Jens-Uwe Blohmer, Carsten Denkert, A Machleidt, Barbara Ingold-Heppner, Steffi Oesterreich, Adrian V. Lee
Software Mentions: 7
Published: almost 4 years ago

10.1016/j.celrep.2015.11.024

Differential DNA Methylation Analysis without a Reference Genome
Cited by: 35
Author(s): Johanna Klughammer, Paul Datlinger, Dieter Printz, Nathan C. Sheffield, Matthias Farlik, Johanna Hadler, Gerhard Fritsch, Christoph Bock
Software Mentions: 6
Published: about 9 years ago

10.7554/eLife.58533

A new role for histone demethylases in the maintenance of plant genome integrity
Cited by: 28
Author(s): Javier Antunez-Sanchez, Matthew Naish, Juan S. Ramirez-Prado, Sho Ohno, Ying Huang, Alexander Dawson, Korawit Opassathian, Deborah Manza‐Mianza, Federico Ariel, Cécile Raynaud, Anjar Tri Wibowo, Josquin Daron, Minako Ueda, David Latrasse, R. Keith Slotkin, Detlef Weigel, Moussa Benhamed, José Gutierrez-Marcos
Software Mentions: 5
Published: about 4 years ago

10.1534/g3.120.401578

Low Base-Substitution Mutation Rate but High Rate of Slippage Mutations in the Sequence Repeat-Rich Genome of Dictyostelium discoideum
Cited by: 8
Author(s): Sibel Küçükyıldırım, Megan G Behringer, Way Sung, Debra A. Brock, Thomas G. Doak, Hatıce Mergen, David C. Queller, Joan E. Strassmann, Michael Lynch
Software Mentions: 4
Published: over 4 years ago

10.1186/s12915-021-00995-5

Plasmodium vinckei genomes provide insights into the pan-genome and evolution of rodent malaria parasites
Cited by: 8
Author(s): Abhinay Ramaprasad, Severina Klaus, Olga Douvropoulou, Richard Culleton, Arnab Pain
Software Mentions: 3
Published: over 3 years ago

10.3390/genes8100237

Optimized mtDNA Control Region Primer Extension Capture Analysis for Forensically Relevant Samples and Highly Compromised mtDNA of Different Age and Origin
Cited by: 45
Author(s): Mayra Eduardoff, Catarina Xavier, Christina Strobl, Andrea Casas-Vargas, Walther Parson
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-016-2459-y

GWASeq: targeted re-sequencing follow up to GWAS
Cited by: 7
Author(s): Matthew P. Salomon, Wai Lok Sibon Li, Christopher K. Edlund, John L. Morrison, Barbara K. Fortini, Aung Ko Win, David V. Conti, Duncan C. Thomas, David Duggan, Daniel D. Buchanan, Mark A. Jenkins, John L. Hopper, Steven Gallinger, Loı̈c Le Marchand, Polly A. Newcomb, Graham Casey, Paul Marjoram
Software Mentions: 2
Published: almost 9 years ago

10.1111/1755-0998.13017

A guinea fowl genome assembly provides new evidence on evolution following domestication and selection in galliformes
Cited by: 21
Author(s): Alain Vignal, Simon Boitard, Noémie Thébault, Guiguigbaza‐Kossigan Dayo, Valentine Yapi‐Gnaore, Issaka Youssao Abdou Karim, Cécile Berthouly‐Salazar, Nóra Pálinkás‐Bodzsár, Daniel D. Guemene, Françoise Thibaud‐Nissen, Wesley C. Warren, Michèle Tixier‐Boichard, Xavier Rognon
Software Mentions: 2
Published: over 5 years ago

10.1002/evl3.46

Comparative analysis examining patterns of genomic differentiation across multiple episodes of population divergence in birds
Cited by: 46
Author(s): Kira E. Delmore, Juan Sebastian Lugo Ramos, Benjamin M. Van Doren, Max Lundberg, Staffan Bensch, Darren E. Irwin, Miriam Liedvogel
Software Mentions: 2
Published: almost 7 years ago

10.1534/g3.120.401551

Loss of Heterozygosity and Base Mutation Rates Vary AmongSaccharomyces cerevisiaeHybrid Strains
Cited by: 14
Author(s): Ajith V Pankajam, Suman Dash, Asma Saifudeen, Abhishek Dutta, K. T. Nishant
Software Mentions: 1
Published: over 4 years ago

10.1186/s40793-018-0316-0

Short genome report of cellulose-producing commensal Escherichia coli 1094
Cited by: 2
Author(s): Joaquín Bernal-Bayard, Laura Gómez-Valero, Aimee K. Wessel, Varun Khanna, Christiane Bouchier, Jean‐Marc Ghigo
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0172516

Early mutation bursts in colorectal tumors
Cited by: 1
Author(s): Junsong Zhao, Matthew P. Salomon, Darryl Shibata, Christina Curtis, Kimberly D. Siegmund, Paul Marjoram
Software Mentions: 1
Published: almost 8 years ago

10.1534/g3.117.1135

Genome Dynamics of HybridSaccharomyces cerevisiaeDuring Vegetative and Meiotic Divisions
Cited by: 32
Author(s): Abhishek Dutta, Gen Lin, Ajith V Pankajam, Parijat Chakraborty, Nahush Bhat, Lars M. Steinmetz, K. T. Nishant
Software Mentions: 1
Published: about 7 years ago

10.1534/g3.119.400006

The Neurospora crassa Standard Oak Ridge Background Exhibits Atypically Efficient Meiotic Silencing by Unpaired DNA
Cited by: 1
Author(s): Dev Ashish Giri, Ajith V Pankajam, K. T. Nishant, Durgadas P. Kasbekar
Software Mentions: 1
Published: over 5 years ago