How to use the gseapy.gsea.ssgsea function in gseapy
To help you get started, we’ve selected a few gseapy examples, based on popular ways it is used in public projects.
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zqfang / GSEApy / tests / test_commands.py View on Github 
def test_ssgsea1(ssGCT, geneGMT):
# Only tests of the command runs successfully,
# doesnt't check the image
tmpdir= TemporaryDirectory(dir="tests")
ssgsea(ssGCT, geneGMT, tmpdir.name, permutation_num=100)
tmpdir.cleanup()def test_ssgsea2(ssGCT, geneGMT):
# Only tests of the command runs successfully,
# doesnt't check the image
tmpdir= TemporaryDirectory(dir="tests")
ssgsea(ssGCT, geneGMT, tmpdir.name, permutation_num=0)
tmpdir.cleanup()
ssgsea(ssGCT, geneGMT, None, permutation_num=0)def test_ssgsea2(ssGCT, geneGMT):
# Only tests of the command runs successfully,
# doesnt't check the image
tmpdir= TemporaryDirectory(dir="tests")
ssgsea(ssGCT, geneGMT, tmpdir.name, permutation_num=0)
tmpdir.cleanup()
ssgsea(ssGCT, geneGMT, None, permutation_num=0)
Popular gseapy functions
- gseapy.__version__.split
- gseapy.algorithm.gsea_compute
- gseapy.algorithm.ranking_metric
- gseapy.enrichr
- gseapy.enrichr.Enrichr
- gseapy.gsea
- gseapy.gsea.GSEA
- gseapy.gsea.GSEAbase
- gseapy.gsea.Prerank
- gseapy.gsea.Replot
- gseapy.gsea.SingleSampleGSEA
- gseapy.gsea.ssgsea
- gseapy.parser
- gseapy.parser.Biomart
- gseapy.parser.gsea_cls_parser
- gseapy.parser.gsea_gmt_parser
- gseapy.plot.gseaplot
- gseapy.utils.DEFAULT_CACHE_PATH
- gseapy.utils.log_init
- gseapy.utils.mkdirs