Processed data and metadata information for "Characterization of cell fate probabilities in single-cell data with Palantir"
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This folder contains data and metadata information for the Human CD34+ bone marrow sc-RNA-seq datasets generated for the above manuscript (https://www.nature.com/articles/s41587-019-0068-4). The data for each replicate is available as a scanpy AnnData object. 

Description of the AnnData object
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.X: Filtered, normalized and log transformed count matrix 
.raw: Filtered raw count matrix
.obsm['MAGIC_imputed_data']: Imputed count matrix using MAGIC
.obsm['tsne']: tSNE maps presented in the manuscript generated using scaled diffusion components as inputs
.obs['clusters']: Clustering of cells
.obs['palantir_pseudotime']: Palantir pseudo-time ordering
.obs['palantir_diff_potential']: Palantir differentation potential 
.obsm['palantir_branch_probs']: Palantir branch probabilities
.uns['palantir_branch_probs_cell_types']: Column names for branch probabilities
.uns['ct_colors']: Cell type colors used in the manuscript
.uns['cluster_colors']: Cluster colors used in the manuscript

Please see the manuscript for analyses steps details. 
Palantir package and notebooks are available at github.com/dpeerlab/Palantir