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When trying to merge a raw h5 matrix ( generated from a .hic file by converting .hic --> .cool --> .h5) , I get the following warning.
```
WARNING:hicexplorer.hicMergeMatrixBins:*WARNING*: The ma…
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--outFileContactPairs in hicAggregateContacts 3.6 does not generate any table for me. --outFilePrefixMatrix works fine. Is this a bug in this version?
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Hello!
I'm trying to figure out a way to visualize TADs without the Hi-C data in hand. The TADs were called by our collaborators, and I was sent BED files for both the domains and boundaries. I was…
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Hi,
I am running hicexplorer=2.2.2 (latest version??), with all the dependencies updated, on a MacOS 10.12.6. I can plot a heatmap from a matrix just fine (without log tranformation):
`hicPlotMat…
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Which normalisation method is used by hicDetectLoops? I have a cooler that I converted from a Juicer hic:
```
> hicInfo -m 5kb.cool
# Matrix information file. Created with HiCExplorer's hicInfo v…
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`hicCorrectMatrix diagnostic_plot -m HiC_matrices/matrix.cool -o HiC_matrices/diagnostic_plot.pdf`
```
Traceback (most recent call last):
File "/package/anaconda3/envs/6e9a864907ee9a26a372a0947ad…
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The first two tracks are PC1 values calculated by Homer…
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Hey guys,
I'm interested in using hicexplorer but when I run the hicBuildMatrix command (from the tutorial) I get the following error:
**Traceback (most recent call last):
File "/Users/jvazq…
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Hi!
Hope you are doing well. I am trying to convert npz files from the DeepHiC pipeline (https://github.com/omegahh/DeepHiC ) to a hic file to visualize using the hicExport command in hicexplorer/2…
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Hi
i statistics the length of TADs that be identified by hicFindTADs in genome， the proportion of TADs in genome always close 100%。 i guess this TADs that be identified by hicFindTADs include loop …