sigc
install
pip install sigccore usage
import sigc
kegg_metabolism = sigc.metabolism_sigs(resources='KEGG')
# other custom signature gene sets also support
df = pd.read_table("cells_X_genes.mat", header=0, index_col=0)
sig_mtx = sigc.sigc_score(df, kegg_metabolism, method="AUCell")
# sig_mtx: cells_X_signaturessignature example
| name | description | member |
|---|---|---|
| Glycolysis | 00010 | HK3 |
| Glycolysis | 00010 | HK1 |
| Glycolysis2 | describ2 | geneX |
Documentation
Extensive documentation and tutorials are available at https://sigc.readthedocs.io
