David Kelley
David Kelley
Hi, it seems like your error message might have been truncated. Can you tell what line of the script it's throwing that SyntaxError on? Does the script only crash on...
Sorry about that. That script is obsolete for the latest version of the code. I'm working on a more effective approach to make a gene-specific predictions. For predicting SNPs, I...
Sorry about that. I'll update the tutorial. In the meantime, it should work if you drop the -g and --h5 options and set the BASENJIDIR environmental variable as suggested in...
In case it's still beneficial to you, I just pushed an update to the tutorials.
Hi, if you're starting with a BED file of peak calls, I recommend Basset instead. I merged that method into this codebase, and you can find instructions for how to...
Hi Yarden, I'm not sure I understand your questions. I don't recognize the filename you sent. You can choose to handle regions of difficult mappability however you'd like; there's no...
The error reports that a contig was observed with an end point that is less than the genomic chromosome's start point. Most likely, it indicates that you have files from...
The tutorial parameters are intended to demonstrate the model and training. You'll want to take parameters from the full model in order to reproduce the paper results.
You don't need to adjust the parameters to replicate.
It's impossible to say with the information you've given. Could you provide more details?