Closed kendigsham closed 1 year ago
Hi kendigsham,
Have you tried using the function rse_from_bam()
? It takes a vector of bam files, the annotation (mm10_pa), and a data frame with the samples metadata. You can then use the output with fit_repac()
.
Let me know if this helps.
It worked. Thank you.
First of all, thank you for creating this package. I have tried your package with my own data (not downloaded from recount3 project), created a RangedSummarizedExperiment experiment from my BAM files and your 'mm10_pa' annotation. I used the 'summarizeOverlaps' function to do so. I followed the steps in your quick start guide until I got the the function 'fit_repac', I got this error:
this is from the last few lines of the code in your function. Does that mean I have no results ?? Also, is there a better way to generate counts from my own data so I can use our package??
Thank you so much