Hi,
How can I change the FDR from the default 0.1 to 0.05?
Thank you
Hi Naamah, you can do that with the argument --fdr_alpha=0.05
Great, will try it now. Thank you!
So I tried it but I get this error:
usage: halla [-h] [–version] -X <input_dataset_1.txt>
[-Y <input_dataset_2.txt>] -o [-q <.1>]
[-p {ecdf,gpd,none}] [-a {HAllA,AllA}]
[–fdr-style {level,all,family}] [-i <1000>]
[-m {nmi,ami,mic,dmic,dcor,pearson,spearman,r2}]
[-d {none,mca,pca,ica,cca,kpca,pls,medoid,mean,farthest}]
[–fdr {bh,by,y,meinshausen,bonferroni,no_adjusting}]
[-v VERBOSE] [–diagnostics-plot]
[–discretizing {equal-freq,hclust,jenks,none}]
[–linkage {single,average,complete,weighted}]
[–apply-stop-condition] [–generate-one-null-samples] [–header]
[–format-feature-names] [–nproc <1>] [–nbin ] [-s SEED]
[-e ENTROPY_THRESHOLD] [-e1 ENTROPY_THRESHOLD1]
[-e2 ENTROPY_THRESHOLD2] [–missing-char MISSING_CHAR]
[–fill-missing {mean,median,most_frequent}]
[–missing-data-category] [–write-hypothesis-tree]
[-t {log,sqrt,arcsin,arcsinh,}]
halla: error: unrecognized arguments: -fdr_alpha=0.05
It looks like you’re using an old version. I recommend you reinstall with pip install halla or get the very latest development version from Github.