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Hi,
I have a group of 16 compounds I am interested in performing some basic unbiased clustering analysis on to better understand if they sub-group in any stand-out way in terms of chemical or struc…
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Hi @nvictus
As quickly discussed, I tried to build a cooler object on a 3Mb Hi-C region from capture Hi-C data.
I'm facing several issues according to the test I run ...
I have a bed file with g…
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Continue the discussion in #104 , I wonder how to normalize the matrix with non-fixed bin sizes like this:
```
chr start end
chr1 104896 105048
chr1 138866 139134
chr1 180743 180904
chr1 181014 …
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Can use this software in non-human species, e.g. cattle? If yes, how I can build pre-trained model? If human model can be extended to other species?
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Hi,
I plan using your tool to analyze HiChIP data (followed by the FithHiChIP tool).
At what step and how is it possible to merge replicates (which have been checked for reproducibility by HiCRep)?…
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I noticed that the filenames of sdist source tarballs for python packages changed around December 2023 for packages containing hyphens (if they are packaged with setuptools and use the latest version)…
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# Final approach before data analysis
## Objective
The main objective of this study is to demonstrate a correlation between high levels of host contamination (HC) and poor assembly and binning per…
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Hello,
I have hic pro files that I converted into .cool in HiC explorer and mergedbins and corrected the matrices.
Now do I need to convert my .cool files into Juicer or HiC Pro to use TADreg? I…
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Hello!
This might be an unusual request, but I have been attempting to use Salmon Alevin for mapping of **scATAC-seq data** (10X Genomics platform) and have a few questions on how to best do this (/w…
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# Binning with CONCOCT
What makes CONCOCT an unsupervised binner is that it bins based on the characteristics of the sequences (sequence composition) and coverage information. Tetranucleotide freque…