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Present meeting: Thomas, Karin, Håkon, Magdalena and Eve (me)
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- [ ] Prepare next meeting with the rest of the results also available, incl also snps and continue the report
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- [ ] co…
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It would be interesting to implement the method Ane developed in Rabier et al. (2014). Ane has given permission and we need to make sure to give credit where due.
https://www.ncbi.nlm.nih.gov/pubme…
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Dear Aouthr!
For now, allhic is the closest software for success to polyploidy in which I used.But I have a bewilderment.
When I use `Allele.ctg.table` pruning some hi-c signal, anchoring rate is ve…
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Based on a survey of the variant types used in CIViC as a starting point:
- SNVs (single nucleotide variants). e.g. `R175H`
- MNVs (e.g. dinucleotide variants). e.g. `VHL c.364_365GC>AT`
- Insert…
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Hello!
Hope this message finds you well.
I want to extend my sincerest thank for developing PECAT, which has been an invaluable tool in my work.
Besides, I am very curious about the possibil…
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Hi @dfguan
Firstly, thanks for an interesting tool - it's proving to be really helpful.
Secondly, I wanted to get your opinion on the output of purge_dups with an (ancestrally) polyploid organ…
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Hi there Kamil _et al.,_
First off, thanks so much for developing this amazing tool. I am having a pervasive problem with interpreting my smudgeplots - specifically, I am wondering whether they re…
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Dear Author,
When performing genome survey via Illumina pair-end data, it showed that the genome size is 9, 700 or 1,400 Mb. However, when I assembled my Nanopore reads using Nextdenove with genome…
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In #5 I asked about the `bulkSize` option in `runQTLseqAnalysis()` if:
>is it the case that this parameter should be the number of genome copies pooled, which for a diploid it would be 2x number o…
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Hi,
I tried to used IsoCon for the sugarcane transcriptome (10Gb Genome, highly polyploidy, 100-130 chromosomes, Aneuploid with varying ploidy level).
And after 7 days with 24CPU, I had this error…