├── .gitattributes ├── DESCRIPTION ├── NAMESPACE ├── R ├── cellmap.R ├── cellmapOne.R ├── cellmapTraining.R ├── common.MuSiC.R ├── common.batchRM.R ├── common.condensGene.R ├── common.createProfile.R ├── common.deconv.R ├── common.evalCellMap.R ├── common.evalProfile.R ├── common.featureSel.R ├── common.mergeProfile.R ├── common.plotComposition.R ├── common.plotCorProfile.R ├── common.plotEval.R ├── common.plotProfileDist.R ├── common.pseudoBulk.R ├── common.pseudoSC.R ├── common.sampleSel.R └── common.updateProfile.R ├── README.md ├── cpProfile.R ├── inst └── extdata │ ├── bulk.rate │ └── bulk.txt ├── man ├── cellmap.Rd ├── cellmapOne.Rd └── cellmapTraining.Rd ├── manuscript ├── Fig │ ├── Fig.profile.heatmap.R │ ├── Fig.profile.heatmap.pdf │ ├── Fig2.R │ ├── Fig2.pdf │ ├── Fig2.png │ ├── Fig2.rds │ ├── Fig3.R │ ├── Fig3.pdf │ ├── Fig3.png │ ├── Fig3.rds │ ├── Fig4.R │ ├── Fig4.pdf │ ├── Fig4.png │ ├── Fig4.rds │ ├── Fig5.R │ ├── Fig5.data.rds │ ├── Fig5.pdf │ ├── Fig5.png │ ├── Fig6.R │ ├── Fig6.data.rds │ ├── Fig6.pdf │ ├── Fig6.png │ ├── Fig7.R │ ├── Fig7.pdf │ ├── Fig7.png │ ├── Fig7.rds │ ├── S1.2.R │ ├── S1.2.rds │ ├── S1.pdf │ ├── S1.png │ ├── S2.pdf │ ├── S2.png │ ├── S3.4.5.R │ ├── S3.4.5.rds │ ├── S3.pdf │ ├── S3.png │ ├── S4.pdf │ ├── S4.png │ ├── S5.pdf │ ├── S5.png │ └── runT.png ├── common │ ├── deconv.Bisque.R │ ├── deconv.CellMap.R │ ├── deconv.MuSiC.R │ ├── deconv.SCDC.R │ └── plotEval.R ├── deconv.R └── pseudo │ ├── CNS6.mix.rate │ ├── CNS6.mix.rds │ ├── CNS6.pure.rate │ ├── CNS6.pure.rds │ ├── Major9.mix.rate │ ├── Major9.mix.rds │ ├── Major9.pure.rate │ ├── Major9.pure.rds │ ├── Neuron3.mix.rate │ ├── Neuron3.mix.rds │ ├── Neuron3.pure.rate │ ├── Neuron3.pure.rds │ └── readme.txt └── profiles ├── CNS6.rds ├── GSE103723.rds ├── GSE104276.rds ├── Major9.rds ├── NGN2.rds └── Neuron3.rds /.gitattributes: -------------------------------------------------------------------------------- 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