CALANGO Report"

CALANGO logo. Drawn by Brazilian artist Berze - https://www.facebook.com/berzearte


CALANGO is an annotation-based comparative genomics tool that searches for annotation terms, as defined in controlled dictionaries, associated with a quantitative phenotype across phenotypes.

CALANGO provides three main outputs as interactive HTML5 files:

To access these interactive visualizations please click on the Results button in the top bar.


Input configuration used

The current report was generated based on the input parameters listed below.

Job finished at: r Sys.time()

defs2 <- restore_relative_paths(defs)
confs <- defs2[c("annotation.files.dir", 
                 "output.dir",
                 "dataset.info",
                 "x.column",
                 "short.name.column",
                 "group.column",
                 "ontology",
                 "dict.path",
                 "column",
                 "denominator.column",
                 "tree.path",
                 "tree.type",
                 "type",
                 "MHT.method",
                 "cores",
                 "spearman.qvalue.cutoff",
                 "pearson.qvalue.cutoff",
                 "kendall.qvalue.cutoff",
                 "linear_model.qvalue.cutoff",
                 "spearman.cor.upper.cutoff",
                 "spearman.cor.lower.cutoff",
                 "pearson.cor.upper.cutoff",
                 "pearson.cor.lower.cutoff",
                 "kendall.cor.upper.cutoff",
                 "kendall.cor.lower.cutoff",
                 "sd.cutoff",
                 "cv.cutoff",
                 "annotation_size.cutoff",
                 "prevalence.cutoff",
                 "heterogeneity.cutoff",
                 "raw_data_sd_filter")]
confs <- data.frame(Parameter = names(confs),
                    Value     = as.character(confs),
                    stringsAsFactors = FALSE)
DT::datatable(confs, 
              options = list(pageLength = 50,
                             searching = FALSE,
                             info = FALSE,
                             ordering = FALSE,
                             dom = "t"))


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CALANGO documentation built on Sept. 19, 2022, 1:06 a.m.