A supplementary data package for scFlow.
You can install scFlowData from GitHub with:
# install.packages("devtools")
devtools::install_github("combiz/scFlowData")You may need to install scFlowData using a Personal Access Token (Github->Settings->Developer Settings): -
# install.packages("devtools")
devtools::install_github("combiz/scFlowData", auth_token = "YOURTOKEN")Raw data files are stored in inst/extdata: -
| Folder | Description |
|---|---|
| ctd | ctd RDS files for reference cell type annotations generated by EWCE |
| pathway_database | Database RDS files for pathway enrichment analysis |
| vignette_data | RDS files and raw data folders for vignette |
| FILE | Description |
|---|---|
| ensembl_mappings.tsv | A tsv file with biomart mappings between human ensembl_gene_id, gene_biotype, external_gene_name |
| human_protein_coding_genome.tsv | A tsv file with human protein coding gene symbols to be used as reference gene list in pathway enrichment analysis |
| de_result_table.tsv | A tsv file with example list of differentially expressed gene, their fold-change, pvalue, adjusted pvalue |