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Right now nPhase is deterministic, meaning it doesn't use any useful time-saving heuristics. It also makes no use of parallelization. Generally it isn't optimized. It would be good to work on these po…
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Thanks so much for this package. The interactivity of the R interface is game changing for my ability to learn/make these plots.
I am comparing two genome assemblies, one that is smaller and more …
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Hello! I'm enjoying using Mash to characterize population structure for my set of bacterial genomes. Thank you for making this software!
As it turns out, I have some very closely related strains …
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I faced with the following error when comparing two large mammalian genomes:
Warning: file (null) was not deleted.
the command was:
./SMASH pseudo_dog10.fa pseudo_cat10.fa
do you have any idea abo…
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Good morning,
I've generated a hal file with two genomes using cactus. I'd like to extract the indels (including the large ones) referenced to one of the two assemblies directly from the hal archive.…
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This means that yane learns to simulate the training data or even games during training, which allows it to learn much faster in the scenario where only one genome can be trained at a time. Or if it i…
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Hi,
can you please describe the options '--dual-scaf' an d'--scaf-gap'. There is no description of it in the documentation. Is this for Hi-C scaffolding or ONT?
Thanks,
Theo
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Hello,
Do you think it is possible to use LDna on a large number of SNPs (>1 000 000) obtained through Whole-genome sequencing? If so what would you recommend to build the LD matrix?
Thanks
Claire
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Hello, thanks your team for developing BRAKER pipeline accessions which promote community to finish gene structure annotation. When I ran BRAKER3(v) pipeline to annotate my genome,I found this program…
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Potential ideas
- Clicking on some types of tracks produces a dialog box that has many subtracks underneath it. Motivated by ucsc which has many tracks, but on their genome browser page, the number…