simplify {clusterProfiler} | R Documentation |
simplify output from enrichGO by removing redundancy of enriched GO terms
simplify output from gseGO by removing redundancy of enriched GO terms
simplify output from compareCluster by removing redundancy of enriched GO terms
## S4 method for signature 'enrichResult' simplify(x, cutoff = 0.7, by = "p.adjust", select_fun = min, measure = "Wang", semData = NULL) ## S4 method for signature 'gseaResult' simplify(x, cutoff = 0.7, by = "p.adjust", select_fun = min, measure = "Wang", semData = NULL) ## S4 method for signature 'compareClusterResult' simplify(x, cutoff = 0.7, by = "p.adjust", select_fun = min, measure = "Wang", semData = NULL)
x |
output of enrichGO |
cutoff |
similarity cutoff |
by |
feature to select representative term, selected by 'select_fun' function |
select_fun |
function to select feature passed by 'by' parameter |
measure |
method to measure similarity |
semData |
GOSemSimDATA object |
x |
output of gseGO |
cutoff |
similarity cutoff |
by |
feature to select representative term, selected by 'select_fun' function |
select_fun |
function to select feature passed by 'by' parameter |
measure |
method to measure similarity |
semData |
GOSemSimDATA object |
updated enrichResult object
updated gseaResult object
updated compareClusterResult object
Guangchuang Yu
Gwang-Jin Kim
Guangchuang Yu
issue #28 https://github.com/GuangchuangYu/clusterProfiler/issues/28
issue #162 https://github.com/GuangchuangYu/clusterProfiler/issues/162