I'd like to use Rsamtools, I think it would be very ideal for generating coverage plots.

However, when I try to use the scaBam function to process a bam file, using the following code

> bam <- scanBam(C_Term_Flag_1)

I always get this error

Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function ‘scanBam’ for signature ‘"spec_tbl_df"’

I cannot find any useful solutions on the web

Has anyone else encountered this issue ?

see session info below

R version 3.6.1 (2019-07-05)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 18362)

Matrix products: default

locale:
[1] LC_COLLATE=English_Ireland.1252  LC_CTYPE=English_Ireland.1252   
[3] LC_MONETARY=English_Ireland.1252 LC_NUMERIC=C                    
[5] LC_TIME=English_Ireland.1252    

attached base packages:
[1] stats4    parallel  stats     graphics  grDevices utils     datasets 
[8] methods   base     

other attached packages:
[1] Rsamtools_2.0.3      Biostrings_2.52.0    XVector_0.24.0      
[4] GenomicRanges_1.36.0 GenomeInfoDb_1.20.0  IRanges_2.18.1      
[7] S4Vectors_0.22.0     BiocGenerics_0.30.0 

loaded via a namespace (and not attached):
[1] zlibbioc_1.30.0        compiler_3.6.1         tools_3.6.1           
[4] GenomeInfoDbData_1.2.1 RCurl_1.95-4.12        BiocParallel_1.17.18  
[7] bitops_1.0-6

scanBam() is expecting either a character(1) path to the file that you want to read, or an object BamFile() created from the path to the file. You instead seem to be passing an object of type "spec_tbl_df", maybe a 'tibble'?

Likely you want to use the GenomicAlignments package, rather than Rsamtools directly.