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# iCellR
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iCellR is an interactive R package to work with high-throughput single cell sequencing technologies (i.e scRNA-seq, scVDJ-seq and CITE-seq).
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### News (July 2020): See iCellR version 1.5.5 with new cell cycle analysis for G0, G1S, G2M, M, G1M and S [phase](https://genome.med.nyu.edu/results/external/iCellR/example1/All_cellcycle.png). See Pseudotime Abstract KNetL map [(PAK map)](https://genome.med.nyu.edu/results/external/iCellR/example1/pseudotime.KNetL.png). See gene-gene [correlations](https://genome.med.nyu.edu/results/external/iCellR/example1/gene-gene.correlation.png). See below for how to.
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### News (May 2020): see our dimensionality reduction called [KNetL map](https://www.biorxiv.org/content/10.1101/2020.05.05.078550v1) <img src="https://github.com/rezakj/scSeqR/blob/master/doc/logo.png" alt="drawing" width="30"/> (pronounced like "nettle"). KNetL map is capable of zooming and shows a lot more details compared to tSNE and UMAP.
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News (April 2020): see our imputation/coverage correction (CC) and batch alignment (CCCA and CPCA) methods. More databases added for cell type prediction (ImmGen and MCA).
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- Tutorial: [example 1 code](https://genome.med.nyu.edu/results/external/iCellR/example1/code.txt) and [results](https://genome.med.nyu.edu/results/external/iCellR/example1/) (based on KNetL map <img src="https://github.com/rezakj/scSeqR/blob/master/doc/logo.png" alt="drawing" width="30"/>)

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