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python juicebox_assembly_converter.py -a kraken.final.review.assembly -f curated.fasta
Processing assembly file. Details:
Assembly: kraken.final.review.assembly
Fasta: curated.fasta
Output p…
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Hi, is there a way to get observed/expected from Juicer Hi-C using fanc.load function?
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Hi,
I ran the ccm module and got three different new_draft.fa. Then I want to ran `bwa index misassembly-free draft`, but I have problems about how to get misassembly-free draft. Should I merge three…
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Hi,
Thanks for taking the time to document all of this!
I'm in a tricky situation because I signed up for Lime using my email, and I was never asked to input a password. I just insert my email a…
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Hi,
First, thank you very much for the helpful tools.
I am currently using hicexplorer version 3.6
I did the following two things:
1. hic output from juicer -> convertformat to cool (correction_me…
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Hey Olga and Neva!
Thank you again for your wonderful tools. I've been using Juicer-2.0 to try and assemble a _de novo_ genome and compare the scaffolding of salsa2+JBAT and 3dDNA+JBAT. To do this,…
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## Description
So as [bike-shedded on Discord](https://discord.com/channels/310555209753690112/310555209753690112/854566238339989504) we talked about how confusing Grinding/Juicing are and bl…
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When exporting a set of operation to a jupyter notebook, the generated code is misaligned, which throws an error when trying to run the code out of the box.
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Dear Dr. Servant,
Recently I am using hicpro2juicebox.sh to transfer allValidPairs to *.hic file.
The code is as following:
bash /public/home/lqiao/WPC/HiC-Pro_2.11.1/bin/utils/hicpro2juicebox.sh\
…
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