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Hi,
I just ran a falcon assembly on a large plant genome (1.4 Gb) using 50 smrtcells.
I kept the .las files and was wondering if i could use them with your new las2paf.pl script.
Or would you rathe…
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Hi
Will there be support for CSI indexing? Currently I'm getting errors when I run createVCFplot. It tries to index with TBI and recommends I use CSI indexing.
I'm working with a large plant gen…
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Hi I have ~1 million of isolate genomes and I wanted to run checkm2 to assess their completeness and contamination. I came across #67 and I was wondering what is a good way to parse a large number of…
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Hi
I'm using vg version v1.40.0 "Suardi".
I'm trying to run vg construct to embed variants into the graph, but it appears that TBI indexing is only used and not CSI. My genome can not be indexed…
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I came across several posts that the MACS is not fine-tuned for Viral ChipSeq (eg SARS-CoV2) (See [Post1](https://www.biostars.org/p/348105/), [Post2](https://biostar.galaxyproject.org/p/17895/). What…
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Dear all,
I'm here for the first time in the community and have been trying for some time to obtain a pangenome to use as a reference for mapping short reads using `vg giraffe` and subsequent varia…
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Dear team;
Thanks for providing those wonderful reference genome. It helps me a lot in my research. I met a problem that many of my reads could mapped to rrna region but was classified to not aligned…
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Dear KrakenUniq team,
I have a theoretical question - I was wondering if you could suggest something here. I am using KrakenUniq to classify bacterial reads from RNA-seq experiments. The database …
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Hello,
I have used Hifiasm to assemble a heterozygous mollusk genome(hifi coverage is about 35X). We have estimate the size of genome on the basis of Illumina data using genomescope and gce: heterozy…
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Hi There,
I used the HiFi reads (~20x) to assemble a genome of an animal species. The output assembly is of high quality with N50 of 30 Mb. However, the genome size (2.6 G) is a bit larger than what …