DeepHiC
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omegahh
A GAN-based method for Enhancing Hi-C data
Hello, I was following the steps in the tutorial for generating trainable/predictable data of the DeepHiC : python data_generate.py -hr 10kb -lr 40kb -s train -chunk 40 -stride 40 -bound...
Hello, I'm trying to train a DeepHiC model at 5kb resolution. I used 1/16 downsampled GM12878 data as input and trained DeepHiC with default parameters. During training, I observed both...
Hi, If I downsample with the ratio 1/16, the max value will also be as 1/16 fold as original matrix. However, the max value of Figure 2a in your paper...
https://github.com/omegahh/DeepHiC/blob/a53135a131f0cb628cd3aae2c9edb36b7d6964e2/all_parser.py#L11 Remove one of the closing bracket
Hi author: I changed my all_parser.py ccording to your instructions: root_dir = '/home/name/Hi-C/deephic' then I put my unzip HiCdata in /home/name/Hi-C/deephic/raw/SAMEA103989648 SAMEA103989648_1.fastq SAMEA103989648_2.fastq and I run python data_aread.py -c SAMEA103989648...
Hi! I hope you are doing well. I was following the steps listed in the tutorial for training the DeepHiC. At the training step (python training.py), I received the following...
Hi, I am trying to work with DeepHiC, but I am a bit confused. In the publication and also in the summary part in github, it is indicated that the...
Hello, I tried to predict high resolution matrix using the [processed file](https://www.dropbox.com/sh/5b5thuk62px5qpk/AAA5n_Mz1maFp3ucTYMYQ7mma/deephic_10kb40kb_c40_s40_b201_nonpool_gm12878.npz?dl=0) that you share. My assumptions were: - This file contains raw low resolution matrix (downsampling ratio: 1/16) -...
Hi, I am trying to follow the tutorial to train the DeepHiC model but met the following error: python data_generate.py -hr 10kb -lr 40kb -s all -chunk 40 -stride 40...
