countGenes in Gene.R

[Roy Jiang]

Currently, when a gene is simply not present at all in a repertoire dataset, the gene is simply omitted from the table when using the group field.

Flag in countGenes, that includes 0 counts or NAs for genes not present in other group categories.

Example possible use case... using count_absent flag

vgene_tab <- countGenes(DF, gene= 'V_CALL', groups=c('SAMPLE', 'STATUS'), mode = 'family', count_absent = TRUE)

will be implemented with use of tidyr::gather and spread

[Roy Jiang]

branch builds. pending merge...

[Roy Jiang]

Could be improved by using tidyr::complete