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XiaoTaoWang / TADLib

A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
GNU General Public License v3.0
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Use '::' to specify a group path" #25

Open bam-13 opened 10 months ago

bam-13 commented 10 months ago

image I have successfully obtained hitad, but I encountered this problem when I was visualizing. I don't know what caused it, could you please help me to solve it.

XiaoTaoWang commented 10 months ago

Hi, since the chromatin contacts seem to be stored in a single-resolution cool file in your case, you need to directly pass the file path "/store/zlzhang/hic_data/12_13paper_data/Rao_2017/GSE104333_Rao-2017-treated_6hr_combined_30-10k_10000.cool" to Triangle, rather than "/store/zlzhang/hic_data/12_13paper_data/Rao_2017/GSE104333_Rao-2017-treated_6hr_combined_30-10k_10000.cool::10000".

bam-13 commented 10 months ago

Thank you for your answer, but I still have the following problem according to your suggestion. I set balance=False, which prompts: TypeError: init() got an unexpected keyword argument 'balance' image

XiaoTaoWang commented 10 months ago

well, then you may need to run cooler balance your_coolfile.cool first