Files in jacobheng/cellwrangler
Supplemental toolkit for single-cell RNAseq analysis
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/.DS_Store
R/.Rapp.history
R/CellType_genes_jitter.R
R/CreateSeuratObjectList.R
R/annotate_bcv.R
R/calculate_mt_exprs.R
R/createMultiSoupChannel.R
R/createSoupChannel.R
R/create_monocle_cds.R
R/dim_coord_barcode.R
R/emptySoup.R
R/exprs_threshold.R
R/findGeneID.R
R/findGeneName.R
R/findRows.R
R/find_CCA_genes.R
R/find_highbcv_genes.R
R/find_sample_dispersed_genes.R
R/find_sample_expressed_genes.R
R/fit_cds_vglm.R
R/gene_barplot.R
R/gene_jitterplot.R
R/get_expressed_genes.R
R/get_kegg_database.R
R/get_kegg_pathway_genes.R
R/get_mean_condition_counts.R
R/get_patternMarkerNames.R
R/load_10X_matrix.R
R/load_CoGAPS_res.R
R/log_normalize_cds.R
R/make_rnk.R
R/mean_scale_cds.R
R/merge_by_rownames.R
R/merge_df_list.R
R/monocle_UMAP.R
R/monocle_fitModel.R
R/monocle_sparse_prcomp_irlba.R
R/order_marker_matrix.R
R/plot_CoGAPS_ChiSq.R
R/plot_CoGAPS_patternSet_dim.R
R/plot_CoGAPS_pattern_cor_dendro.R
R/plot_CoGAPS_pattern_cor_heatmap.R
R/plot_CoGAPS_pattern_dim.R
R/plot_bcv.R
R/plot_drops_diagnostics.R
R/plot_gene_exprs.R
R/plot_groups.R
R/plot_marker_heatmap.R
R/plot_matrix_dendrogram.R
R/plot_matrix_heatmap.R
R/plot_mean_exprs_heatmap.R
R/plot_pathway_dendrogram.R
R/plot_pathway_heatmap.R
R/plot_pheatmap.R
R/plot_sparse_pca_var.R
R/row_SD.R
R/row_SE.R
R/sparse_pca.R
R/sparse_pca_biplot.R
R/spectral_tsne.R
R/spectral_umap.R
R/split_aggr_mtx.R
R/subset_cds.R
R/summarize_cds_exprs.R
R/testDrops.R
README.md
cellwrangler.Rproj
inst/umap.py
man/.DS_Store
man/CellType_genes_jitter.Rd
man/CreateSeuratObjectList.Rd
man/annotate_bcv.Rd
man/calculate_mt_exprs.Rd
man/createMultiSoupChannel.Rd
man/createSoupChannel.Rd
man/create_monocle_cds.Rd
man/dim_coord_barcode.Rd
man/emptySoup.Rd
man/exprs_threshold.Rd
man/findGeneID.Rd
man/findGeneName.Rd
man/findRows.Rd
man/find_CCA_genes.Rd
man/find_highbcv_genes.Rd
man/find_sample_dispersed_genes.Rd
man/find_sample_expressed_genes.Rd
man/fit_cds_vglm.Rd
man/gene_barplot.Rd
man/gene_jitterplot.Rd
man/get_expressed_genes.Rd
man/get_kegg_database.Rd
man/get_kegg_pathway_genes.Rd
man/get_mean_condition_counts.Rd
man/get_patternMarkerNames.Rd
man/load_10X_matrix.Rd
man/load_CoGAPS_res.Rd
man/log_normalize_cds.Rd
man/make_rnk.Rd
man/mean_scale_cds.Rd
man/merge_by_rownames.Rd
man/merge_df_list.Rd
man/monocle_UMAP.Rd
man/monocle_fitModel.Rd
man/monocle_sparse_prcomp_irlba.Rd
man/order_marker_matrix.Rd
man/plot_CoGAPS_ChiSq.Rd
man/plot_CoGAPS_patternSet_dim.Rd
man/plot_CoGAPS_pattern_cor_dendrogram.Rd
man/plot_CoGAPS_pattern_cor_heatmap.Rd
man/plot_CoGAPS_pattern_dim.Rd
man/plot_bcv.Rd
man/plot_drops_diagnostics.Rd
man/plot_gene_exprs.Rd
man/plot_groups.Rd
man/plot_marker_heatmap.Rd
man/plot_matrix_dendrogram.Rd
man/plot_matrix_heatmap.Rd
man/plot_mean_exprs_heatmap.Rd
man/plot_pathway_dendrogram.Rd
man/plot_pathway_heatmap.Rd
man/plot_pheatmap.Rd
man/plot_sparse_pca_var.Rd
man/rowSD.Rd
man/rowSE.Rd
man/sparse_pca.Rd
man/sparse_pca_biplot.Rd
man/spectral_tsne.Rd
man/spectral_umap.Rd
man/split_aggr_mtx.Rd
man/subset_cds.Rd
man/summarize_cds_exprs.Rd
man/testDrops.Rd
