copy version 1.1.0

DESCRIPTION

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+Package: cellrangerRkit
+Title: Analysis Tools for 10x Genomics Chromium Single-Cell RNA-seq
+Version: 1.1.0
+Author: 10x Genomics <software@10xgenomics.com>
+Maintainer: 10x Genomics <software@10xgenomics.com>
+Description: Provides tools for exploring the data output of 10x Genomics'
+    Single Cell RNA-seq product.
+License: AGPL
+URL: http://software.10xgenomics.com/docs/license, http://software.
+        10xgenomics.com/single-cell/pipelines/latest/rkit
+biocViews: DataImport, Clustering, GeneExpression, RNASeq, Sequencing,
+        Software, Visualization
+LazyData: true
+Depends: R (>= 3.1), Matrix (>= 1.2), Biobase, RColorBrewer, ggplot2,
+        bit64, Rmisc
+Imports: rhdf5 (>= 2.14.0), data.table, Rtsne, pheatmap, irlba
+Suggests: testthat, knitr
+Collate: 'analysis.r' 'class_gene_bc_matrix.r' 'constants.r' 'data.r'
+        'help.r' 'io.r' 'normalize.r' 'plot.r' 'util.r'
+VignetteBuilder: knitr
+RoxygenNote: 5.0.1
+Packaged: 2016-11-22 01:59:51 UTC; paulr

Makefile

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+all:	rkit vignette
+
+rkit:
+	mkdir -p build
+	R CMD build --no-build-vignettes .
+
+vignette:
+	Rscript scripts/run_knitr.R
+
+clean:
+	rm -rf build

NAMESPACE

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+# Generated by roxygen2: do not edit by hand
+
+export(cell_composition)
+export(concatenate_gene_bc_matrices)
+export(download_sample)
+export(equalize_gbms)
+export(gbm_pheatmap)
+export(get_correletion_scores)
+export(get_custom_col)
+export(get_gene_dispersion)
+export(get_matrix_from_h5)
+export(get_mean_mapped_reads_per_cell)
+export(get_mean_raw_reads_per_cell)
+export(get_nonzero_genes)
+export(get_read_count_mtx)
+export(load_analysis_results_from_path)
+export(load_cellranger_analysis_results)
+export(load_cellranger_matrix)
+export(load_cellranger_matrix_from_files)
+export(load_cellranger_matrix_h5)
+export(load_molecule_info)
+export(load_molecule_info_from_path)
+export(log_gene_bc_matrix)
+export(merge_clusters)
+export(newGeneBCMatrix)
+export(normalize_barcode_sums_to_median)
+export(order_cell_by_clusters)
+export(plot_barcode_counts)
+export(plot_population_corr)
+export(prioritize_top_genes)
+export(run_differential_expression)
+export(run_kmeans_clustering)
+export(run_pca)
+export(run_tsne)
+export(select_cells_by_clusterID)
+export(select_clusters_by_gene_markers)
+export(subsample_gene_bc_matrix)
+export(train_multinomial)
+export(trunc_gbm_by_genes)
+export(visualize_clusters)
+export(visualize_gene_markers)
+export(visualize_umi_counts)
+export(visualize_variable_genes)
+export(write_cluster_specific_genes)
+exportMethods("+")
+exportMethods("-")
+exportMethods(Arith)
+exportMethods(Compare)
+exportMethods(Logic)
+exportMethods(Math)
+exportMethods(Math2)
+exportMethods(Summary)
+exportMethods(colMeans)
+exportMethods(colSums)
+exportMethods(dim)
+exportMethods(dimnames)
+exportMethods(ncol)
+exportMethods(nrow)
+exportMethods(rowMeans)
+exportMethods(rowSums)
+import(Biobase)
+import(Matrix)
+import(data.table)
+import(ggplot2)
+import(pheatmap)
+import(rhdf5)
+importFrom(Rtsne,Rtsne)
+importFrom(irlba,irlba)