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Hi,
It would be interesting to see a comparison between these two.
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**Which tool should be included?**
https://github.com/c-zhou/yahs
https://www.biorxiv.org/content/10.1101/2022.06.09.495093v1
**How is it used?**
```
yahs contigs.fa hic-to-contigs.bam
```
…
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Hello,
I am writing here as I could not find a google group for yahs. This is not a software issue, more of an unexpected behaviour in my data I could use help interpreting.
I am working with Pa…
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Hi,
I am wondering whether would be advisable to do more than one round of yahs analysis. Meaning:
Round one: mapping hic reads to draft.fa --> hic.bam + yahs --> manual curation with Juicebox -…
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Hello Developers,
I have been utilizing yahs for Hi-C data processing followed by Juicer's preprocessing pipeline. My command for running yahs was:
```bash
yahs /NGS/Fungi/Rc/juicer/references/…
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Hi
I am using the software chromap developed by you for map HiC reads, but an error occurred during the alignment. I hope to get your help. The following is my code and error, thank you
conda cr…
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Hello,
Thank you for developing this pipeline.
I run the pipeline on a linux HPC system with the following input using -profile conda:
```
nextflow run WarrenLab/hic-scaffolding-nf \
-p…
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Hi,
I had installed the suite in three linux machines using miniconda3. The PretexMap work well without any problem, but the PretextSnapshot gives this error in each server:
barta@summit:/molb…
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I ran the command: `/share/org/HapHiC/haphic pipeline MM.p_ctg.fa MMHiC.filtered.bam 11` with the species karyotype of 2N=2X=22. The method used for genome assembly is "hifiasm + Hi-C". The N10-N90 va…
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Hi
I am working on assembling a genome using hifiasm, and I obtained a phased assembly (hap1). However, the size is bigger than I expected and it has a high degree of duplication per BUSCO. I am su…