Error in h(simpleError(msg, call)) : error in evaluating the argument 'query' in selecting a method for function 'findOverlaps': 'start' and 'end' must be numeric vectors

[lipikakalson]

Hi, I am running the numbat on scRNAseq data, but I am getting error using run_numbat(). I am sharing the ss of the data:

And this is the command I am using and error I am getting.

out = run_numbat(
  count_mat, # gene x cell integer UMI count matrix 
  ref_hca, # reference expression profile, a gene x cell type normalized expression level matrix
  df_allele, # allele dataframe generated by pileup_and_phase script
  genome = "hg38",
  t = 1e-5,
  ncores = 40,
  plot = TRUE,
  out_dir = './test',
)
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'query' in selecting a method for function 'findOverlaps': 'start' and 'end' must be numeric vectors

Thanks, Lipika

[teng-gao]

Hello,

The input format looks correct .. could you attach here or email me an example?

Thanks, Teng