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ay-lab / FitHiChIP

Statistically Significant loops from HiChIP data
MIT License
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Hicpro version #68

Closed xumai-du closed 2 years ago

xumai-du commented 2 years ago

For the latest version of FitHiChIP(9.1.0), is it still mandatory to use Hicpro/2.11.4? Thanks!

ay-lab commented 2 years ago

Hi @xumai-du Thanks for your query. HiC-pro version should be >= 2.11.4. We recommend using the latest version of HiCPro.

xumai-du commented 2 years ago

Thank you for the quick reply!

SO I used Hicpro/3.1.0 but it didn’t work. The problem seems to be related with ICE procedure. Please see attached out file. Note: we use FitHiChIP/9.1 although it was labelled as 9.1_2. It was only labelled differently so that we can test different versions of hicpro.

Mai

From: ay-lab @.> Sent: Wednesday, December 29, 2021 9:27 PM To: ay-lab/FitHiChIP @.> Cc: Xu, Mai (NIH/NCI) [E] @.>; Mention @.> Subject: [EXTERNAL] Re: [ay-lab/FitHiChIP] Hicpro version (Issue #68)

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Hi @xumai-duhttps://github.com/xumai-du Thanks for your query. HiC-pro version should be >= 2.11.4. We recommend using the latest version of HiCPro.

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ay-lab commented 2 years ago

Hi @xumai-du Does the problem persist? In general, HiCPro version 3.1.0 should work. Need to install the ICE as suggested in the HiC-pro documentation. FitHiChIP searches the ICE executable before bias correction.