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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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Hi,
I used conda version of 3D-DNA (version 190716) to scaffold my genome.
However, I have not got FINAL files including FINAL.fasta, FINAL.hic although no errors were not observed in log file.
…
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Hi, I use juicer and 3d-dna pipeline to scaffold my initial assembly ,How the obtained FINAL.fasta is about two fold of my initial genome and the scaffod number is also about fold of my initial genome…
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Hi!
Our analysis and the design of Scout, for historical reasons, heavily rely on CADD. However, there are now several new in silico prediction tools available. The advantage of CADD is that …
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Hi pastis developer,
is it possible to used pastis-NB infer diploid genome 3d structure?
Thanks
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Hi,
I have a 0.9Gbp plant genome with HiFi and Hi-C data. HiFiasm has given me an assembly the correct size with 1000 contigs. Can you please clarify this paragraph in the documentation: https://h…
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Hi,
We have assemblied a plant genome ( ~ 400M ) using typical command of HiC mode in hifiasm and then scaffolded the contigs of hap1 and hap2 seperately using 3D-DNA. In our previous knoledge, …
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Add papers about plant genome size as responses to this issue!
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the genome was ultra large scale about 23G, after I motif the assembly via the juicerbox, and conduct the next step with the command "bash ~/software/3d-dna-master/run-asm-pipeline-post-review.sh -r .…
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Hi,
I ran Genomscope2 an a histogram (create with Illumina data like this: jellyfish count -C -m 21 -s 25556999998 -t 10 -F 3 -o ./Gverna.21mer_counts.jf forward_1.fq reverse_2.fq unpaired.fq && je…