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: bioconductor: flowWorkspace
https://packages.ecosyste.ms/registries/bioconductor.org/packages/flowWorkspace
Infrastructure for representing and interacting with gated and ungated cytometry data sets.
1 version
Latest release: 12 months ago
13 dependent packages
241,452 downloads total
Papers Mentioning flowWorkspace 15
10.12688/gatesopenres.12832.2
DataPackageR: Reproducible data preprocessing, standardization and sharing using R/Bioconductor for collaborative data analysisCited by: 7
Author(s): Greg Finak, Bryan T. Mayer, William J. Fulp, Paul Obrecht, Alicia Sato, Eva Yin-han Chung, Drienna Holman, Raphaël Gottardo
Software Mentions: 19
Published: about 6 years ago
10.12688/f1000research.11622.3
CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasetsCited by: 205
Author(s): Małgorzata Nowicka, Carsten Krieg, Helena L. Crowell, Lukas M. Weber, Felix J. Hartmann, Silvia Guglietta, Burkhard Becher, Mitchell P. Levesque, Mark D. Robinson
Software Mentions: 15
Published: over 5 years ago
10.1186/s12859-019-2787-4
flowDiv: a new pipeline for analyzing flow cytometric diversityCited by: 9
Author(s): Bruno Wanderley, Daniel Araújo, María Victoria Quiroga, André Megali Amado, Adrião Duarte Dória Neto, Hugo Sarmento, Sebastián Metz, Fernando Unrein
Software Mentions: 13
Published: over 5 years ago
10.3389/fimmu.2020.01659
Conventional and Computational Flow Cytometry Analyses Reveal Sustained Human Intrathymic T Cell Development From Birth Until PubertyCited by: 2
Author(s): Marieke Lavaert, Brecht Valcke, Bart Vandekerckhove, Georges Leclercq, Kai Ling Liang, Tom Taghon
Software Mentions: 12
Published: about 4 years ago
10.3390/cancers13081788
Analysis of Intra-Tumoral Macrophages and T Cells in Non-Small Cell Lung Cancer (NSCLC) Indicates a Role for Immune Checkpoint and CD200-CD200R InteractionsCited by: 7
Author(s): Anders Tøndell, Yashwanth Subbannayya, Sissel Gyrid Freim Wahl, Arnar Flatberg, Sveinung Sørhaug, Magne Børset, Markus Haug
Software Mentions: 12
Published: over 3 years ago
10.1186/1471-2105-13-252
QUAliFiER: An automated pipeline for quality assessment of gated flow cytometry dataCited by: 17
Author(s): Greg Finak, Wenxin Jiang, Jorge Pardo, Adam Asare, Raphaël Gottardo
Software Mentions: 8
Published: about 12 years ago
10.1371/journal.pcbi.1003806
OpenCyto: An Open Source Infrastructure for Scalable, Robust, Reproducible, and Automated, End-to-End Flow Cytometry Data AnalysisCited by: 171
Author(s): Greg Finak, Jacob Frelinger, Wenxin Jiang, Evan W. Newell, John Ramey, Mark M. Davis, Spyros A. Kalams, Stephen C. De Rosa, Raphaël Gottardo
Software Mentions: 8
Published: about 10 years ago
10.7554/eLife.51739
A phenotypic screening platform utilising human spermatozoa identifies compounds with contraceptive activityCited by: 14
Author(s): Franz S Gruber, Zoe C Johnston, Christopher L.R. Barratt, Paul D. Andrews
Software Mentions: 5
Published: over 4 years ago
10.1172/jci.insight.148435
A specific low-density neutrophil population correlates with hypercoagulation and disease severity in hospitalized COVID-19 patientsCited by: 70
Author(s): Samantha M. Morrissey, Anne E Geller, Xiaoling Hu, David Tieri, Chuan‐Fan Ding, Christopher K Klaes, Elizabeth A. Cooke, Matthew R Woeste, Zachary C Martin, Oscar Chen, Sarah A. Bush, Huang‐Ge Zhang, Rodrigo Cavallazzi, Sean P. Clifford, James Chen, Smita Ghare, Shirish Barve, Lu Cai, Maiying Kong, Eric C. Rouchka, Kenneth R. McLeish, Silvia M. Uriarte, Corey T. Watson, Jiapeng Huang, Jun Yan
Software Mentions: 5
Published: over 3 years ago
10.1002/cyto.a.23663
<i>CytoML</i> for cross‐platform cytometry data sharingCited by: 23
Author(s): Greg Finak, Wenxin Jiang, Raphaël Gottardo
Software Mentions: 5
Published: almost 6 years ago
10.1172/jci.insight.146883
Highly multiplexed 2-dimensional imaging mass cytometry analysis of HBV-infected liverCited by: 14
Author(s): Daniel Traum, Yue J. Wang, Kathleen B. Schwarz, Jonathan Schug, David Wong, Harry L.A. Janssen, Norah A. Terrault, Mandana Khalili, Abdus S. Wahed, Karen F. Murray, Phillip Rosenthal, Simon C. Ling, Norberto Rodriguez‐Baez, Richard K. Sterling, Daryl Lau, Timothy M. Block, Michael D. Feldman, Elizabeth E. Furth, William M. Lee, David E. Kleiner, Anna S. Lok, Klaus H. Kaestner, Kyong Mi Chang
Software Mentions: 4
Published: over 3 years ago
10.1371/journal.pgen.1008686
Quantitative genetic analysis deciphers the impact of cis and trans regulation on cell-to-cell variability in protein expression levelsCited by: 6
Author(s): Michael D. Morgan, Étienne Patin, Bernd Jabla, Milena Hasan, Lluís Quintana‐Murci, John C. Marioni
Software Mentions: 4
Published: over 4 years ago
10.1038/s41598-018-31181-3
Characterization and induction of prophages in human gut-associated Bifidobacterium hostsCited by: 23
Author(s): Travis N. Mavrich, Eoghan Casey, Joana Oliveira, Francesca Bottacini, Kieran James, Charles M. A. P. Franz, Gabriele Andrea Lugli, Horst Neve, Marco Ventura, Graham F. Hatfull, Jennifer Mahony, Douwe van Sinderen
Software Mentions: 3
Published: about 6 years ago
10.3389/fimmu.2019.01194
Quantitative Comparison of Conventional and t-SNE-guided Gating AnalysesCited by: 39
Author(s): Shadi Toghi Eshghi, Amelia Au-Yeung, Chikara Takahashi, Christopher R. Bolen, Maclean N. Nyachienga, Sean Lear, Cherie Green, W. Rodney Mathews, William O’Gorman
Software Mentions: 3
Published: over 5 years ago
10.1038/srep20686
Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping ConsortiumCited by: 219
Author(s): Greg Finak, Marc Langweiler, Martha Jaimes, Mehrnoush Malek, Jafar Taghiyar, Yael Korin, Khadir Raddassi, Lesley Devine, Gerlinde Obermoser, Marcin Ł. Pękalski, Nikolas Pontikos, Alain Diaz, Susanne Heck, Federica Villanova, Nadia Terrazzini, Florian Kern, Qian Yu, Rick Stanton, Kui Wang, Aaron Brandes, John Ramey, Nima Aghaeepour, Tim R. Mosmann, Richard H. Scheuermann, Elaine F. Reed, Karolina Palucka, Virginia Pascual, Bonnie B. Blomberg, Frank O. Nestle, Robert B. Nussenblatt, Ryan R. Brinkman, Raphaël Gottardo, Holden T. Maecker, J. Philip McCoy
Software Mentions: 2
Published: over 8 years ago