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> none of them can directly output files in .hic or .mcool formats.
`Juicer` (https://github.com/aidenlab/juicer/wiki ) outputs `.hic` fil…
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Also: "I've downloaded the Dfam-7.hmm.gz.md5"? This is (only) the checksum for the Dfam-7.hmm.gz file. You may want to download the Dfam-7.…
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As @michael noted above, you will need to run the `configure` program after installing with conda.
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I would ask Nebula to reanalyze `person1.vcf` for you, since you show it was aligned against a different reference so is not compatible.
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Thanks @michaeld, although I download RepeatMasker with conda.
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> But lima seems to not take any computation resources to process, and only show that it is running when I use "jobs".
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There's a configure script in the RepeatMasker distribution. From the documentation: https://www.repeatmasker.org/RepeatMasker/
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You *can* do that, but more information would be necessary to explain your open-ended question more. Why do you think it biases analysis? A…
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**I would like to introduce you to our invited speakers:**
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Great points, there!
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What is your aim here? Asking the right question will ensure that you get the correct answer.
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I have the same issue, did you find a solution?
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Look at Ragtag on github, assuming you have a close reference to align against. Else your main option is spending more on Hi-C data. Else m…
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the `dorado` does remove adapters for only 10.4.1 etc data. If you have data from r9.4.1, you should activate `---trim` flag.
I suggest al…
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I suppose the first one, since I don't have the information of the real chromosome
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