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Hi,
I would like to use smudgeplot with a large genome, with potential polyploidy (transmissible cancer case like in #40).
Genome size around 1.2Gb with high heterozygosity >3%.
The number of uniqu…
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Hello,
When I run the canu in LSF cluster system, some small errors occurred as follows:
In `Plant.err ` file content
```
-- Canu snapshot (snapshot)
--
-- CITATIONS
--
-- Koren S, Walenz BP…
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Hi,
I saw a closed issue showing the same problem but the user solved the problem him/herself.
I used converf to convert my vcf file to the required format, and the snp count seems to be normal:
…
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Hi, skoren
We recently want to assembly a high repetitive(>60%), high heterozygous(>1%) hexaploid plant. We already have 242 Gb raw Nanopore R9 1D data (N50 33kb).Based the flow cytometry, the geno…
baozg updated
4 years ago
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I want to do this based on literature for a particular system, using demography life-cycle graphs and transition matrices.
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Hello,
I have an assembly produced using the recommended parameters for assembling polyploidy genomes in the Q&A section of the readthedoc pages. As expected, the size of the assembly is 2X of the…
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Hi,
I executed the hicbuildmatrix function and got the following plot from the diagnostic plot function of hicCorrectMatrix..
![corrected_hicu2](https://user-images.githubusercontent.com/20971751…
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Hello,
Thank you so much to design such an excellent software to do with HiC assembly! I am a green hand in genome assembly. Now I am going to generate the Allele.ctg.table, but I am confused of th…
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Additional things to consider
====================================
- Costs associated with polyploidy
- Triploid sterility (or odd number, infertile); assume they're entirely or almost entire…
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Hi,
I just ran flye on some pacbio reads we have (~50x coverage) of a monogonont rotifer.
The sequence comes from an inbred line, but we likely have some (ancient) polyploidy going on, and the g…