min_nucleotide_depth parameter of PileupParam doesn't take 0

[sarahwajid]

Hello

If a user wants all positions output even if a reference position has zero coverage, the min_nucleotide_depth parameter=0 does not work to output the position with zero coverage.

p_param <- PileupParam(min_nucleotide_depth=0L,min_minor_allele_depth=0L,distinguish_strands=TRUE,min_mapq=10L,min_base_quality =10L,max_depth=200000L,
distinguish_nucleotides=TRUE, ignore_query_Ns=FALSE,include_deletions=TRUE, include_insertions=TRUE)

[ArjenB85]

I am struggling with the exact same problem! Did you solve it?