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Hi, @sc-zhang 你是否测试过ALLHiC_prune？ 我发现它的结果和默认的ALLHIC_Prune结果不一致。
```
for (long i = 2; i < data.size(); i++)
for(std::unordered_map::iterator iter=ctgdb.begin(); iter!=ctgdb.end(); iter++)
``…
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Hi, I was wondering how long allhic should take to run? I am currently running the pruning step on an autotetraploid and it is still running after 4 days, I was just wondering if this is normal or if …
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Hi Dr. zhang
when I use the ALLHiC_partition，I maked k 29, but I total get 23 prunning.counts_GATC.29, Is this normal?
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Hi,
I used this tutorial (https://github.com/Yujiaxin419/ALLHiC/wiki/Manually-refine-ALLHiC-scaffold-assembly-through-juicebox) to get a .hic file. My commond is:
nohup bash ~/3d-dna-201008/visualiz…
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This my command:
ALLHiC_plot -b sorted.bam -a groups.agp -l chrn.list -s 50k -o ./heatmap-pdf
error happened in step2 :Get signal matrix
[17:27:39] Step1: Get chromosome length
[17:27:39] Ste…
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Hi, I am trying to run ALLHiC_corrector, but get the following error. DO you have any recommendations?
[13:29:17] Contig: ptg000402l Getting mapping list
[13:29:17] Contig: ptg001136l Ge…
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[14:52:18] Step1: Get chromosome length
[14:52:18] Step2: Get signal matrix
[15:57:46] Step3: Draw heatmap
[15:57:46] Drawing with bin size 500k
Traceback (most recent call last):
File "/home/x…
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Hello
We have done a phased assembly using HiFi data and Improved Phased Assembly (IPA) on a polyploid plant. Then, we did a Omni-C (Dovetail) for the same plant and we got the its short read libra…
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Hello,
Thanks for great tool. I have question regarding development of phased assembly. I used hifiasm to generate haplotype level contain assemblies. As the phases are interchanged in the hifiasm …
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Hi,
I was interested in running pstools with Omni-C data but I had the next error segementation fault error running hic_mapping_haplo.
`...
[M::tb_pipeline::10452.864*42.22] processed 1333334 …