Chia-Pet Pipeline

Question

[Assa Yeroslaviz]

Hi everybody,

Has anyone had any success working with the tool provided by the chia-pet paper: The papers provides a tool for a complete analysis of chia-PET data set.

We have tried to install the tool and got into several problems, which are too complicated to explain in this thread. I would just like to know if anyone has ever successfully installed the tool and was able to work with it on any paired-end fastq files? We have tried the data set provided by the authors of the paper with no success.

But as the tool is built to work inside one directory (sort of a enclosed environment), I was wondering if someone has a working version of this tool and is willing to share it with others.

Thanks in advance,

Assa

[ancient_learner]

I have been trying to install but with no success. really was not able to figure out where the problem is. did u get to solve it by any chance by now?

[Assa Yeroslaviz]

yes I did. I have installed it and it runs, with a lot of problems. I am working on the tool for over a year now and it still doesn't work to my satisfaction. But it works.

P.S. I can't understand how they manage to publish it.

[ancient_learner]

Mine is not a project on chia-pet but i have liked the way they represented Promoter-Enhancer interactions with loop like structures. I don't require any thing else except for that. do u have idea about any other software with which I can produce such a plot

Answer 1

[Assa Yeroslaviz]

Hi again,

is this tool so exotic or the technique so extravagant, that no one is using it at all?

Dies anyone know a different tool to work with chiapet data?