pre-built references

gtex_bulk_matrix

Matrix of average gene expression from GTEx recount bulk RNA seq.

ref_MCA

Matrix of average gene expression for single-cell RNA-seq.

ref_cortex_dev

Matrix of average gene detection on cortex development cell types

ref_hema_microarray

Matrix of average gene detection by microarray on sorted immune cell populations

ref_immgen

Matrix of average gene expression from immgen data

ref_moca_main

Matrix of average gene expression per cluster from single-cell sci-RNA-seq3 from Mouse Organogenesis Cell Atlas.

ref_mouse.rnaseq

Matrix of average gene expression from general mouse cell type data

ref_pan_indrop

Matrix of average gene expression per cluster from single-cell RNA-seq pancreas data using indrop method.

ref_pan_smartseq2

Matrix of average gene expression per cluster from single-cell RNA-seq pancreas data using smartseq2 method.

ref_tabula_muris_drop

Matrix of average gene expression per cluster from single-cell RNA-seq from Tabula Muris (10x genomics).

ref_tabula_muris_facs

Matrix of average gene expression per cluster from single-cell RNA-seq from Tabula Muris (SMART-Seq2).

Data sets ported from Seurat

s_small

Small clustered Seurat2 object

s_small3

Small clustered Seurat3 object

Data sets from 10x Genomics

pbmc5_markers

Marker genes identified by Seurat from single-cell RNA-seq PBMCs from 5'end kit.

pbmc5_matrix

Matrix of single-cell RNA-seq PBMCs from 5'end kit.

pbmc5_meta

Meta-data for single-cell RNA-seq PBMCs from 5'end kit.

pbmc_avg

Matrix of average gene expression per cluster from single-cell RNA-seq PBMCs.

pbmc_markers

Marker genes identified by Seurat from single-cell RNA-seq PBMCs.

pbmc_markers_M3Drop

Marker genes identified by M3Drop from single-cell RNA-seq PBMCs.

pbmc_matrix

Matrix of single-cell RNA-seq PBMCs.

pbmc_meta

Meta-data for single-cell RNA-seq PBMCs.

pbmc_vargenes

variable genes identified by Seurat from single-cell RNA-seq PBMCs.

Data sets from the Mouse Cell Atlas

MCA_lung_mat

Matrix of single-cell RNA-seq cells of the lung.

MCA_lung_meta

Meta-data for single-cell RNA-seq of the lung.

Data sets from the Hemberg lab

pan_indrop_markers

Marker genes identified by Seurat from single-cell RNA-seq pancreas data using indrop method.

pan_indrop_matrix

Matrix of single-cell RNA-seq pancreas data using indrop method.

pan_indrop_meta

Meta-data for single-cell RNA-seq pancreas data using indrop method.

pan_indrop_vargenes

variable genes identified by Seurat from single-cell RNA-seq pancreas data using indrop method.

pan_smartseq2_matrix

Matrix of single-cell RNA-seq pancreas data using smartseq2 method.

pan_smartseq2_meta

Meta-data for single-cell RNA-seq pancreas data using smartseq2 method.

pan_smartseq2_vargenes

variable genes identified by Seurat from single-cell RNA-seq pancreas data using smartseq2 method.

Miscellaneous data sets

gtex_bulk_matrix

Matrix of average gene expression from GTEx recount bulk RNA seq.

yan_ref

Matrix of average gene expression from `yan` human embryo data

downrefs

table of references stored in clustifyrdata