Closed Li-Yaoting closed 9 months ago
environment and package version
Sorry for the late reply. I´ll have a look and come back to you in the following days.
If you send me the file I will do a test and let you know.
The following file is a test file that can be used, exported from the circExplorer2 software. SRR6890663_GSM3066231_G01S01Y_Young_1.known.txt
circRNAprofiler was tested with circExplorer2 v2.3.4 output file (circularRNA_full.txt). I tested with the latter file and it was working fine. The error arise when I used the file that you have provided. In any case I fixed the error dplyr::bind_rows(), so you should now be able to use it. Install the latest version ( Release 3.18) of circRNaprofiler.
Could you let me know if it works?
Thanks,it work. However, if the first line of the circularRNA_full.txt file has "ciRNA" as circtype, an error will occur. I hope it can be fixed, corresponding to the circularRNA_full.txt file.
SRR20204938_GSM6338657_29256.2.circularRNA_known.txt
Why do you have ciRNA rather than circRNA?
What you can do for now is to preprocess the file, by changing ciRNA with circRNA and it should work.
Hello, Authors of CircRNAprofiler. I'm encountering an error when using the module backSplicedJunctions <- getBackSplicedJunctions(gtf). The error message says " Error in and .
Could you provide guidance on how to resolve this issue? I am using the following package versions: R (v 4.3.1), CircRNAprofiler (v 1.14), and dplyr (v 1.1.2). The data I am using is the output after annotation of circExplorer2 (v2.3.8), with the addition of a header before reading. The data format is shown in the image attached. Prior to analysis with CircRNAprofiler, I checked the project folder using checkProjectFolder, and the result was 0. Could you please advise on how to address this dplyr data merging error? Thank you.
dplyr::bind_rows()
: ! Can't combine..1$startUpBSE
..2$startUpBSE