HiCExplorer

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### Main command version: hicexplorer==3.7.3 (micromamba install) ``` chicViewpoint -m 3_hicmatrices/*_matrix.h5 \ --averageContactBin 5 --range 1000000 1000000 \ -rp \ -bmf 4_background_model/bg.txt \ --outFileName 5_calc_all_interactions/all_interactions.ugenes.hdf5 --fixateRange 500000 --threads 30 ```...

mtekman

'Styler' object has no attribute 'render'

3

Hello, I am trying to run HicBuildMatrix on a conda install. Conda environent was installed was per version specifications given. Thank you, Manoj The command is module load miniconda conda...

pillailab

hicexplorer attributeerrora: 'styler' object has no attribute 'render'

2

hicexplorer attributeerrora: 'styler' object has no attribute 'render'

xfcypeng

chicQualityControl fails with ImportError (conda version 3.7.2)

2

* `hicInfo --version = 3.7.2` * `python --version = 3.10.13` Downgrading to 3.6 seems to solve this

mtekman

isuue with mcool to hic

2

I have been exploring the documentation and it seems that the hicConvertFormat module does not support converting .mcool files to .hic files. I was wondering if there are any plans...

zzhoujialu

hicDetectLoops 'neihgborhood_unsmoothed' is not defined

1

Hello, I got an error trying to use hicDetectLoops. Command : `` python hicDetectLoops -m /NANO/Result/Matheo/MCF7/distiller/pipeline_output/MCF7_distiller.cool -o ~/results.bedgraph `` HiCExplorer was installed using the latest version available on pip (version...

Matheo-LESNE

conda/mamba installation not working with python=3.11

3

I tried to install hicexplorer inside a Singularity container with conda, and it didn't work due to incompatibility: ``` Collecting package metadata (current_repodata.json): done Solving environment: unsuccessful initial attempt using...

aminakur

hicPCA -we default option

3

`hicexplorer --version` hicexplorer 3.7.2 `hicPCA -m in.mcool::/resolutions/500000 -f bedgraph -o pca1.bedgraph pca2.bedgraph` ERROR:hicexplorer.hicPCA:Number of output file names and number of eigenvectors does not match. Please provide the name of each...

StrohD

Installation issue.

1

I try to install hicexplorer on MacOS Monetary 12.3.1 and it generates the following error every time I issue the command. It appears that the problem stems from the OS...

ratheraarif

There is no data for the region considered on the matrix.

7

I am trying to plot TADs using the HiCPlotTADs tool , but I keep receiving the same error. ``` INFO:pygenometracks.tracksClass:plotting 1. [x-axis] INFO:pygenometracks.tracksClass:plotting 2. [hic matrix] WARNING:pygenometracks.tracks.GenomeTrack:*Warning* There is no...

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