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Hello @awuster!
Super interesting R/Bioc-package.
Was it ever published, or is there an official reference of for the method?
Is there a source for the lambda value being set to 7.61e-06?
…
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Hey Vince,
I'm using your tool in the course of haplotype phasing moss contigs.
As a first proof of concept, I called 212 variants (mostly SNPs) with freebayes on a specific contig of ~6,5kb and trie…
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When there is no trio data available, is it possible to produce hifiasm style pseudo-haplotype resolved assemblies?
I was not able to produce the pseudo-haplotypes from the final assembly. Do you …
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The following subroutines or blocks should be understood first before meaningful changes to the code can happen.
### canu.pl
Relevant blocks:
- [x] `while (scalar(@ARGV))`: parses cmd line o…
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Hi,
I have constructed the block library based on the genotypic data of ~4000 tomatoes. I want to use plot_block() to draw the graphics only based on subset of samples (~100). Is there any tools av…
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Input: PacBio long read, HiC and Illumina short read data
Assembly: Canu v2.1.1 and then run my assembly through purgeHaplotigs
Variants: FreeBayes
I process HiC and PacBio files as recommended …
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Hello,
I wonder how longphase handles supplementary alignments during phasing and haplotagging; as a separate read or they inherit HP/PS of the primary alignments.
Thank you,
Ayse
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Hello, I've been running stitch a bunch and this is the first time I'm seeing this particular error:
```
...
[2024-06-25 09:56:53] Done generating inputs
[2024-06-25 09:56:53] Copying files onto t…
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Hi @dinhdiep
Thanks for sharing this nice software to the community.
I have reviewed the README file and found that there is a wrong instruction at **Identifying the methylation haplotype bloc…
tahuh updated
2 years ago
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"Thank you for your excellent work on genome scaffolding. I would like to seek your help to further improve the scaffolding for our genome.
We are studying a diploid plant species with an expected …