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. 2019 Apr 5;10:317. doi: 10.3389/fgene.2019.00317

Table 3.

Subpopulation identification methods for scRNA-seq data.

Methods URL References
SC3 http://bioconductor.org/packages/SC3 Kiselev et al., 2017
ZIFA https://github.com/epierson9/ZIFA Pierson and Yau, 2015
Destiny https://github.com/theislab/destiny Angerer et al., 2016
SNN-Cliq http://bioinfo.uncc.edu/SNNCliq/ Xu and Su, 2015
RaceID https://github.com/dgrun/RaceID Grun et al., 2015
SCUBA https://github.com/gcyuan/SCUBA Marco et al., 2014
BackSPIN https://github.com/linnarsson-lab/BackSPIN Zeisel et al., 2015
PAGODA http://hms-dbmi.github.io/scde/ Fan et al., 2016
CIDR https://github.com/VCCRI/CIDR Lin et al., 2017
pcaReduce https://github.com/JustinaZ/pcaReduce Zurauskiene and Yau, 2016
Seurat https://github.com/satijalab/seurat Satija et al., 2015
TSCAN https://github.com/zji90/TSCAN Ji and Ji, 2016