get_cn_segments is broken

morinlab / GAMBLR

Set of standardized functions to operate with genomic data

https://morinlab.github.io/GAMBLR/

MIT License

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get_cn_segments is broken #136

Closed rdmorin closed 1 year ago

rdmorin commented 1 year ago

It looks like the only way the get_cn_segments function works is when the database is used. The from_flatfile option is available but when I try supplying it I get an error:

my_segments = get_cn_segments(region="chr8:128,723,128-128,774,067",from_flatfile=TRUE)
 Error in rbind(all_segs_matched, all_segs_unmatched) : 
object 'all_segs_matched' not found

mattssca commented 1 year ago

Thanks for posting an issue of this. I will look into this.