-
hicFindEnrichedContacts --outFileName OUTFILENAME --method
{z-score,obs/exp} [--perchr] [--skipDiagonal]
[--depth DEPTH] [--help] [--ver…
-
Hi all,
Can you provide a little more background info for the `hicCorrelate` optional parameter `--range`?
So, for example, let's say a user wants to plot the correlation between two technical r…
-
HI,
I have got the following problem:
```
RuleException:
CalledProcessError in line 137 of /work/waterhouse_team/miniconda2/envs/snakePipes/lib/python3.6/site-packages/snakePipes/shared/rules/hi…
-
Hi:
The script:`hicConvertFileFormats --matrices $hicpro --inputFormat hicpro --outputFormat cool --bedFileHicpro $hicpro_bed` and it worked.
But when I used the output '.cool' files to run `…
-
Hello,
I'm trying to use HiCExplorer to visualize some data, so attempting to export some of what I have to hicexplorer format from cool files with the following command:
hicExport --inFile /HiC…
-
For example when I use:
```
hicConvertFormat -m $1.cool -o $1.GI --inputFormat cool --outputFormat ginteractions
```
I receive the following messages but no output is created.
```
DEBUG:hice…
-
Hello,
I generated a matrix from another pipeline using cooler and used cooler to normalize it. When I use this matrix as input in hicplotmatrix or hicplottad in hicexplorer.usegalaxy.eu, it is only …
-
Hi,
I am the developer of the Hi-C data analysis software HiCExplorer (https://github.com/deeptools/hicexplorer) and some of my user like your tool for interactively exploring the data. We support …
-
TypeError raised during testing of `test_trivial_runs.py::test_build_matrix()` due to region parameter:
https://github.com/Rungetf/HiCExplorer/blob/testing/hicexplorer/test/test_trivial_runs.py#L96
…
-
I have this in the back of my head since forever.
Basically when you plot a high number of Hi-C matrices with `hicPlotMatrix` and you want to compare them "by eye" (without doing a log2 ratio of 2…