qpcr_DDCT_LOD: CTs to log2 fold change relative to controls with LOD...
In Jtrachsel/funfuns: Functions I Use (Title Case)

Description Usage Arguments Value Examples

CTs to log2 fold change relative to controls with LOD estimates

qpcr_DDCT_LOD(
  data,
  exp_genes_indicies,
  housekeeping_gene_index,
  control_row_indicies,
  metadata_column_indicies,
  LOD,
  LOD_conf = 0.999
)

`data`	is is the input dataframe, should have genes as columns and samples as rows, replicates should be collpsed and only one housekeeping gene is supported. I don't think NA's or missing data is supported...not really sure.
`exp_genes_indicies`	A numeric vector containing the column indicies for the genes of experimental interest
`housekeeping_gene_index`	A single numeric value defining the column index for the housekeeping gene
`control_row_indicies`	A numeric vector containing the row indicies for the samples that are in the control group. Final data will be expressed relative to the mean of this group for each gene.
`metadata_column_indicies`	Numeric column indicies defining which columns are metadata and should be returned along with the final results
`LOD`	Your desired Limit of detection, all cts above this value will be replaced with NA and then this value
`LOD_conf`	The confidence level for the LOD estimate

returns list of length 2, 1) a dataframe of log2(2^DDct) values centered on the mean of the control group and 2) a dataframe of LOD estimates for each gene