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:
Heatmaps
Scatterplots of q-values of annotation terms
Table of annotation terms and their statistics
To access these interactive visualizations please click on the Results
button in the top bar.
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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