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that the following requirements are met :**
- [x] Search whether this issue (or a similar issue) has been sol…
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I run the hicBuildMatrix(I use a subset) :
hicBuildMatrix --samFiles subset_R1.bam subset_R2.bam --binSize 20000 --restrictionSequence GATC --danglingSequence GATC --restrictionCutFile cut_sites.bed …
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Hi,
I am using the latest 3.7.2 installed via conda and I am having this error (see below) when executing
`hicAdjustMatrix-3.7.2 -a keep --interIntraHandling inter -m matrix.h5 -o matrix.trans…
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Hi all,
i have a bit of a problem when using a modified approach of aligning my Hi-C data with the bwa-mem algorithm.
I'm using HiCExplorer version 3.7.2 and python 3.8.0
When aligning the pa…
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Hello, I'm having issues with `hicDifferentialTAD` for relatively large bin sizes. Domains are called with `hicFindTADs` without any problems. Sometimes it works, sometimes it doesn't. Seems to break …
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Hello, Professor Wang, thank you for providing so much useful software. I tried a lot of software, such as fanc,hicexplorer, but did not draw the hic map I wanted. I was so lucky to see this beautiful…
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Hi Vincent,
We like to test if neuronal activation in mice (biqucucline treatment) caused the D-compartmentalization. We liked your analysis of annotating the D compartment and followed your method a…
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Dear all,
I am finding this problem when calculating a background model.
Command in:
chicQualityControl -m matrix.nr.h5 --referencePoints RFpoints.bed --sparsity 0.025 --threads 20 --outFileNa…
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This software you have developed is fantastic! But I have a problem when I use the `hicMergeDomains` to merge TAD files in multiple resolutions, how should I solve it?
```bash
hicexplorer=3.7.2 pyth…
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Hi,
I am highly interested to run TopDom for my research. Currently,I am using HiC Explorer to generate matrix file in h5 format.
I am also attaching the HiCexplorer command for your information:…