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Hi,
First,
I am wondering the step:
` Finally, the HiFi and short reads were combined to polish the ONT assembly. `
What software did you use to polish the genome?
Second,
what are the sequenc…
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I have 20 de novo hybrid genome assemblies (ONT plus Illumina; flye plus pylon polishing) of different strains of the same species.
For an initial genome reference, we also have a high quality (T2T,…
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When running winnowmap, the -I option is not recognized.
e.g. after generating the repetitive_k15.txt with meryl:
`winnowmap -W repetitive_k15.txt -a -x map-pb -Y -L --eqx --cs -I 32G ref.fa.gz re…
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Hi all:
I think all translators know when they were making document translation, They must looked for all subversion to find what paragraph had been changed. It is waste all translator's time. Plea…
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### Description
Problem: *CNN_dailymail*
Model: Transformer
hparams: transformer_prepend, transformer_base_v2
When I train the model with *transformer_prepend* hparams, the outputs of the de…
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Hi,
Due to the nature of our system we are unable to acquire the parents of our sequenced individual, we sequencing a lot of children data.
What should I do to build hap-kmer using these children…
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@lukaszkaiser
This is to illustrate what I have discussed on gitter.
Working with WMT EN-FR, I have observed the following.
You can replicate the paper results with "transformer -base" with 4 GP…
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Dear YaHS Developers and Users,
For large genomes, the .assembly and .hic files generated by YaHS are not fully compatible with Juicebox. Manually setting the scale factor in Juicebox may be necess…
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HI Arang,
One question I have is that I used hifi data on well assembled T2T genomes to predict QV and found in QV between 53-56(Completeness:93). And I found other genomes that are not T2T, some p…
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Hello!
I wanted to express my gratitude for developing such excellent software! I recently assembled diploid haplotypes using pacbio hifi data, ont ultra long data, and hic data. I ran separate mer…