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RegulatoryGenomicsGroup / chicdiff

A differential caller for capture Hi-C data
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Make the designdir before running #1

Closed vmalysheva closed 5 years ago

vmalysheva commented 6 years ago

Curent version requires to have a designdir with rmap and baitmap. The path to designdir has then to be modified in the test.R.

Probably it is better to get rid of the designdir?

mspivakov commented 6 years ago

You mean get rid of it as have files supplied as individual arguments? Sounds reasonable if you prefer.

On a separate note, should we continue using the issue tracker on bitbucket to avoid splitting them across two platforms?

vmalysheva commented 6 years ago

Yes, I just wanted to keep the chicago structure. But finally I don't think we really need it here. OK then, will change that.

Yes, I think it is better to keep the issue tracker on bitbucket.

mspivakov commented 6 years ago

Sure – just note that users will have designDir set up, since the package will require Chicago anyway.

From: vmalysheva notifications@github.com Reply-To: RegulatoryGenomicsGroup/chicdiff reply@reply.github.com Date: Thursday, 30 November 2017 at 13:10 To: RegulatoryGenomicsGroup/chicdiff chicdiff@noreply.github.com Cc: Mikhail Spivakov Mikhail.Spivakov@babraham.ac.uk, Comment comment@noreply.github.com Subject: Re: [RegulatoryGenomicsGroup/chicdiff] Make the designdir before running (#1)

Yes, I just wanted to keep the chicago structure. But finally I don't think we really need it here. OK then, will change that.

Yes, I think it is better to keep the issue tracker on bitbucket.

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