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This software is used by many bioinformatic groups here at UB. Used mostly for genome assembly. Please install the following softwares:
https://github.com/aidenlab/3d-dna
(I believe there is an Ea…
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Hello,
I would like to express my gratitude for developing such a lightweight tool. I believe that data format conversion is a common issue in three-dimensional genome research and I would like to …
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Hi,
Thanks for developing this tool, i was trying to run this pipeline, i run juicer pipeline with my draft geneme first, then i used "merged_nodups.txt" for puzzle, I got an issue when doing the 9th…
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**Definition**
Brain regions are grouping of one or multiple cortical areas which can provide many benefits including:
- help better organizing brain structures in functional units
- reduces clutte…
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1) Add motion control
2) QC itself with projector
3) Add misc
4) Increase Misc's dimension to 4x1x1
5) Activate motion control once
6) Activate anything on MISC and it will qc projector on motion…
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### Ask away!
Hello developer
We have been interested in pore-c recently. We can deploy and execute test files on our server smoothly, but we find that we have encountered many problems in using rea…
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hello friend
I assembly the genome with juicer and 3d-dna, when run the command "run-asm-pipeline.sh -r 0 raw_scaffold_2.fasta ./aligned/merged_nodups.txt"
its error
![image](https://github.com/a…
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Dear 3D-DNA users,
I used 3D-DNA to assemble a plant genome. the initial genome size was 1.6G, after using 3D-DNA pipeline it became 1.4G. I want to know why this happened and where is the 0.3G data?…
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We are working on genome assembly of an interspecific hybrid plant having two genomes.
During the 3d-dna step even with haploid mode and diploid, we always had errors saying:
> :( Assembly file …
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Hi ,
I ran 3d-dna for a plant genome with the command:
sh 3d-dna/run-asm-pipeline.sh 9201_Genome_Scaffold.fasta merged_nodups.txt
I got error infomation as follows:
awk: 3d-dna-master/util…