Understand BioQC analysis and evaluate whether we could use it in hermes

[cicdguy]

BioQC is a method to detect tissue heterogeneity in gene expression data (Zhang et al., BMC Genomics, 2017). Enrichment for unexpected tissues can be a consequence of mislabeled samples, technical reasons (e.g. imperfect dissection) or biological reasons (e.g. immune infiltration).

In biokitr:

• 378 tissue-specific gene signatures derived from public and in-house data are considered
• Signatures are tested for enrichment in highly expressed genes for each sample using the Wilcoxon-Mann-Whitney test
• Enrichment scores Q are defined based on the -log10(p-value)
• Signatures with Q > 2 in at least one sample are shown in the heatmap (the top 40 if there are more)

Internal information:
See https://drive.google.com/file/d/18U_ShdB0ATSWSwdXohUvlA3aC4ZnRmWE/view minute 17
BEDA/biokitr/blob/ab4c130410539f51fbfe680b7e5bc93f5a5163e7/R/gse_bioqc.R#L24
BEDA/biokitr/blob/ab4c130410539f51fbfe680b7e5bc93f5a5163e7/R/gse_bioqc.R#L67

To do: just design.