how to import hdf5 Hi-C data into R using HiTC package
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15 months ago
rheab1230 ▴ 140

Hello everyone, I was trying to use HiTC software but I am not able to understand how to input my dataset. I used this command: x <- importC(con=chr9,xgi.bed=colnames(chr9),ygi.bed = rownames(chr9)) error in evaluating the argument 'con' in selecting a method for function 'import': 'path' must be a single string or a connection object My chr9 dataset look like this:

            0          40000       80000 
0           0          0            0
40000       0          0            73.527

Wherein each column and row corresponds to a bin size and value corresponds to interaction freq. Thank you.

hdf5 importC R HiTC • 535 views
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From the error you may need to specify the file path instead of passing it the imported data.

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