Description Usage Arguments Value
This function will perform fast preranked gene set encrichment analysis
1 2 3 4 5 6 7 8 9 | rank_gse(
directory,
rank_data,
out_dir = "3_gse",
from_gene,
to_gene,
cluster_name,
rank_by = "logFC"
)
|
directory |
Directory to get gmt file |
rank_data |
This can be a Directory to get RDS file or directly passing in dataframe |
out_dir |
Output directory |
from_gene |
"ENSG" or "ENSMUSG" or "HGNC" or "MGI" |
to_gene |
"MGI" or HGNC |
cluster_name |
Cluster name that user want to do the geneset analysis on |
rank_by |
User defined data ranking by logFC, Pvalue, or sign_Pvalue (Default setting at logFC) |
Outputs dataframe from fgsea function
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