Seurat specifications

Information


Unique identifier OMICS_10888
Name Seurat
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use None
Input data A gene expression matrix, where the rows are genes and the columns are single cells.
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.2.0
Stability Stable
Requirements ggplot2, cowplot, Matrix, Java
Source code URL https://cran.r-project.org/web/packages/Seurat/index.html
Maintained Yes

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Documentation


Maintainers


  • person_outline Satija Lab <>
  • person_outline Paul Hoffman <>

Seurat articles

Seurat citation

2018
PMCID: 5904143

[…] the primary functions identified using action, we assigned each cell to a single dominant function, as determined by its closest archetype. we compare our method to five recently proposed methods: seurat (v2.2)15, snncliq7, backspin16, single-cell parti8,17, and tscan9 (supplementary noteĀ 1) to predict annotated cell types on the same four datasets (see methods, datasets). for the melanoma […]

Seurat institution(s)
Broad Institute of MIT and Harvard, Cambridge, MA, USA; Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA, USA; Center for Brain Science, Harvard University, Cambridge, MA, USA; Harvard Stem Cell Institute, Harvard University, Cambridge, MA, USA; Center for Systems Biology, Harvard University, Cambridge, MA, USA; Howard Hughes Medical Institute, Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA
Seurat funding source(s)
Supported by F32 HD075541, the Jane Coffin Childs Memorial Fund for Medical Research, the NIH, NHGRI CEGS 1P50HG006193, the Klarman Cell Observatory, and HHMI.

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