telomere prediction

[amit4mchiba]

Hi,

I wanted to run your telomere search pipeline, but I am not able to. I downloaded the github, and then tried running the telomere_analysis.sh, but i keep getting error that fasta file is not found, but I am giving the correct address. I adjusted the script and added path for the VGP_PIPELINE assuming that is causing the issue, but probably not. I am not sure if what I am doing is correct, and will really appreciate your help to guide me as how to run this program and get the results.

thank you so much,

regards
Amit

[amit4mchiba]

Hi,

I tried running build.sh, and it seems that it will create a telomere.jar file and all the java files are created (I am guessing although not sure). I am not sure as what file format and content will be for ,ends. and ,asm.csv.? Also, what is threshold here? I mean, what 0.4 means?

I wonder if it will be possible to provide an example folder or smthing like that which will allow to understand as how it works.

thank you in advance,

regards
Amit