bioconductor: flowClust | Projects

10.1186/s12859-019-3152-3

flowEMMi: an automated model-based clustering tool for microbial cytometric data
Cited by: 16
Author(s): Joachim Ludwig, Christian Höner zu Siederdissen, Zishu Liu, Peter F. Stadler, Susann Müller
Software Mentions: 18
Published: over 4 years ago

10.1186/s12859-020-03795-w

optimalFlow: optimal transport approach to flow cytometry gating and population matching
Cited by: 11
Author(s): Eustasio del Barrio, Hristo Inouzhe, Jean-Michel Loubès, Carlos Matrán, Agustín Mayo-Íscar
Software Mentions: 10
Published: almost 4 years ago

10.3389/fonc.2016.00188

Immunophenotype Discovery, Hierarchical Organization, and Template-Based Classification of Flow Cytometry Samples
Cited by: 12
Author(s): Ariful Azad, Bartek Rajwa, Alex Pothen
Software Mentions: 10
Published: almost 8 years ago

10.3390/vaccines8010138

From Bivariate to Multivariate Analysis of Cytometric Data: Overview of Computational Methods and Their Application in Vaccination Studies
Cited by: 12
Author(s): Simone Lucchesi, Simone Furini, Donata Medaglini, Annalisa Ciabattini
Software Mentions: 9
Published: over 4 years ago

10.1371/journal.pone.0203247

Determination of essential phenotypic elements of clusters in high-dimensional entities—DEPECHE
Cited by: 9
Author(s): Axel Theorell, Yenan T. Bryceson, Jakob Theorell
Software Mentions: 9
Published: over 5 years ago

10.1371/journal.pcbi.1003806

OpenCyto: An Open Source Infrastructure for Scalable, Robust, Reproducible, and Automated, End-to-End Flow Cytometry Data Analysis
Cited 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: almost 10 years ago

10.1186/1471-2105-14-133

How cyanobacteria pose new problems to old methods: challenges in microarray time series analysis
Cited by: 23
Author(s): Robert Lehmann, Rainer Machné, Jens Georg, Manuela Benary, Ilka M. Axmann, Ralf Steuer
Software Mentions: 8
Published: over 11 years ago

10.1186/1471-2105-11-44

The curvHDR method for gating flow cytometry samples
Cited by: 29
Author(s): Ulrike Naumann, George Luta, M. P. Wand
Software Mentions: 7
Published: over 14 years ago

10.1371/journal.pcbi.1003365

Flow Cytometry Bioinformatics
Cited by: 85
Author(s): Kieran O’Neill, Nima Aghaeepour, Josef Špidlen, Ryan R. Brinkman
Software Mentions: 7
Published: over 10 years ago

10.1186/1471-2105-10-145

flowClust: a Bioconductor package for automated gating of flow cytometry data
Cited by: 165
Author(s): Kenneth Lo, Florian Hahne, Ryan R. Brinkman, Raphaël Gottardo
Software Mentions: 6
Published: about 15 years ago

10.1186/1471-2105-11-403

Data reduction for spectral clustering to analyze high throughput flow cytometry data
Cited by: 142
Author(s): Habil Zare, Parisa Shooshtari, Arvind Gupta, Ryan R. Brinkman
Software Mentions: 5
Published: about 14 years ago

10.1186/1471-2105-10-106

flowCore: a Bioconductor package for high throughput flow cytometry
Cited by: 421
Author(s): Florian Hahne, Nolwenn Le Meur, Ryan R. Brinkman, Byron Ellis, Perry D. Haaland, Deepayan Sarkar, Josef Špidlen, Errol Strain, Robert Gentleman
Software Mentions: 5
Published: over 15 years ago

10.1186/s12859-019-3055-3

Cytokit: a single-cell analysis toolkit for high dimensional fluorescent microscopy imaging
Cited by: 38
Author(s): Eric Czech, Bülent Arman Aksoy, Pınar Aksoy, Jeff Hammerbacher
Software Mentions: 5
Published: almost 5 years ago

10.1186/1751-0473-8-14

GenePattern flow cytometry suite
Cited by: 16
Author(s): Josef Špidlen, Aaron Barsky, Karin Breuer, Peter A. Carr, Marc‐Danie Nazaire, Barbara Hill, Qian Yu, Ted Liefeld, Michael Reich, Jill P. Mesirov, Peter Wilkinson, Richard H. Scheuermann, Rafick‐Pierre Sékaly, Ryan R. Brinkman
Software Mentions: 5
Published: about 11 years ago

10.1371/journal.pcbi.1003130

Hierarchical Modeling for Rare Event Detection and Cell Subset Alignment across Flow Cytometry Samples
Cited by: 74
Author(s): Andrew Cron, Cécile Gouttefangeas, Jacob Frelinger, Lin Lin, Satwinder Singh, Cedrik M. Britten, Marij J.P. Welters, Sjoerd H. van der Burg, Mike West, Cliburn Chan
Software Mentions: 4
Published: about 11 years ago

10.1155/2009/809469

Bridging the Divide between Manual Gating and Bioinformatics with the Bioconductor Package flowFlowJo
Cited by: 4
Author(s): John J. Gosink, Gary Means, William Rees, Cheng Su, Hugh Rand
Software Mentions: 4
Published: almost 15 years ago

10.1186/1471-2105-11-546

Optimizing transformations for automated, high throughput analysis of flow cytometry data
Cited by: 71
Author(s): Greg Finak, Juan-Manuel Perez, Andrew P. Weng, Raphaël Gottardo
Software Mentions: 4
Published: over 13 years ago

10.3389/fimmu.2016.00603

TGF-β Affects the Differentiation of Human GM-CSF+ CD4+ T Cells in an Activation- and Sodium-Dependent Manner
Cited by: 5
Author(s): Szabolcs Éliás, Angelika Schmidt, Venkateshan Kannan, John Andersson, Jesper Tegnér
Software Mentions: 4
Published: over 7 years ago

10.1155/2009/193947

FlowFP: A Bioconductor Package for Fingerprinting Flow Cytometric Data
Cited by: 39
Author(s): Wade T. Rogers, Herbert A. Holyst
Software Mentions: 3
Published: almost 15 years ago

10.1155/2009/356141

Analysis of High-Throughput Flow Cytometry Data Using plateCore
Cited by: 7
Author(s): Errol Strain, Florian Hahne, Ryan R. Brinkman, Perry D. Haaland
Software Mentions: 3
Published: almost 15 years ago

10.7554/eLife.67806

Mutational sources of trans-regulatory variation affecting gene expression in Saccharomyces cerevisiae
Cited by: 10
Author(s): Fabien Duveau, Petra Vande Zande, Brian P. H. Metzger, Crisandra J. Diaz, Elizabeth A. Walker, Stephen Tryban, Mohammad A. Siddiq, Bing Yang, Patricia J. Wittkopp
Software Mentions: 3
Published: almost 3 years ago

10.1371/journal.pone.0100334

Joint Modeling and Registration of Cell Populations in Cohorts of High-Dimensional Flow Cytometric Data
Cited by: 43
Author(s): Saumyadipta Pyne, Sharon X. Lee, Kui Wang, Jonathan M. Irish, Pablo Tamayo, Marc‐Danie Nazaire, Tarn Duong, Shu‐Kay Ng, David A. Hafler, Ronald Levy, Garry P. Nolan, Jill P. Mesirov, Geoffrey J. McLachlan
Software Mentions: 2
Published: about 10 years ago

10.1093/bioinformatics/btw190

MEMO: multi-experiment mixture model analysis of censored data
Cited by: 7
Author(s): Eva-Maria Geissen, Jan Hasenauer, Stephanie Heinrich, Silke Hauf, Fabian J. Theis, Nicole Radde
Software Mentions: 2
Published: over 8 years ago

10.1155/2009/461763

Recent Bioinformatics Advances in the Analysis of High Throughput Flow Cytometry Data
Cited by: 0
Author(s): Raphaël Gottardo, Ryan R. Brinkman, George Luta, M. P. Wand
Software Mentions: 2
Published: over 15 years ago

10.7554/eLife.37272

Fitness effects of altering gene expression noise in Saccharomyces cerevisiae
Cited by: 55
Author(s): Fabien Duveau, Andrea Hodgins‐Davis, Brian P. H. Metzger, Bing Yang, Stephen Tryban, Elizabeth A. Walker, Tricia Lybrook, Patricia J. Wittkopp
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0037906

The Yin and Yang of Yeast Transcription: Elements of a Global Feedback System between Metabolism and Chromatin
Cited by: 46
Author(s): Rainer Machné, Douglas B. Murray
Software Mentions: 2
Published: about 12 years ago

10.1016/j.devcel.2012.01.005

Cell-Surface Proteomics Identifies Lineage-Specific Markers of Embryo-Derived Stem Cells
Cited by: 132
Author(s): Peter J. Rugg‐Gunn, Brian Cox, Fredrik Lanner, Parveen Sharma, Vladimir Ignatchenko, Angela McDonald, Jodi Garner, Anthony O. Gramolini, Janet Rossant, Thomas Kislinger
Software Mentions: 2
Published: over 12 years ago

10.3389/fimmu.2015.00564

Increased NK Cell Maturation in Patients with Acute Myeloid Leukemia
Cited by: 20
Author(s): Anne-Sophie Chrétien, Samuel Granjeaud, Françoise Gondois-Rey, Samia Harbi, Florence Orlanducci, Didier Blaise, Norbert Vey, Christine Arnoulet, Cyril Fauriat, Daniel Olive
Software Mentions: 2
Published: over 8 years ago

10.1186/1471-2105-11-502

Misty Mountain clustering: application to fast unsupervised flow cytometry gating
Cited by: 32
Author(s): István P. Sugár, Stuart C. Sealfon
Software Mentions: 2
Published: almost 14 years ago

10.1155/2009/247646

Merging Mixture Components for Cell Population Identification in Flow Cytometry
Cited by: 82
Author(s): Greg Finak, Ali Bashashati, Ryan R. Brinkman, Raphaël Gottardo
Software Mentions: 2
Published: over 14 years ago

10.1038/cti.2017.22

NKG2C<sup>+</sup> memory‐like NK cells contribute to the control of HIV viremia during primary infection: Optiprim‐ANRS 147
Cited by: 37
Author(s): Françoise Gondois-Rey, Antoine Chéret, Samuel Granjeaud, Françoise Mallet, Ghislain Bidaut, Camille Lécuroux, Mickaël J.-Y. Ploquin, Michaela Müller‐Trutwin, Christine Rouzioux, Véronique Avettand-Fènoël, Alessandro Moretta, Gilles Pialoux, Cécile Goujard, Laurence Meyer, Daniel Olive
Software Mentions: 1
Published: about 7 years ago

10.3389/fimmu.2017.00054

A Mature NK Profile at the Time of HIV Primary Infection Is Associated with an Early Response to cART
Cited by: 21
Author(s): Françoise Gondois-Rey, Antoine Chéret, Françoise Mallet, Ghislain Bidaut, Samuel Granjeaud, Camille Lécuroux, Mickaël J.-Y. Ploquin, Michaela Müller‐Trutwin, Christine Rouzioux, Véronique Avettand-Fènoël, Andrea De Maria, Gilles Pialoux, Cécile Goujard, Laurence Meyer, Daniel Olive
Software Mentions: 1
Published: over 7 years ago

10.1534/g3.114.011783

Mapping Small Effect Mutations in<i>Saccharomyces cerevisiae</i>: Impacts of Experimental Design and Mutational Properties
Cited by: 22
Author(s): Fabien Duveau, Brian P. H. Metzger, Jonathan D. Gruber, Katya L. Mack, Natasha Sood, Tiffany E. Brooks, Patricia J. Wittkopp
Software Mentions: 1
Published: about 10 years ago

Ecosyste.ms: Papers

Projects: bioconductor: flowClust

Papers Mentioning flowClust 33