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I'm curious if this process works when one maps the reads to a reference genome for another species. For example, we have low-coverage reads (``14x) for one species and have inferred a reference-based…
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One last question: when I download the reference genome at home I have no problems, but here at work we have a very restricted internet using a proxy and the download doesn't work. Could you tell me t…
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It looks like the summary report may be reporting wrong genome sizes.
For human (taxID 9606):
From report: 6,339,524,059 (2X bigger than expected)
From [NCBI](http://www.ncbi.nlm.nih.gov/genome?LinkN…
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Lets decide how we go with this.
I think it makes sense to test current assembly with real data that needs analysis to gauge status.
I sugget two ways forward -
More PacBio or Nanopore....
sr320 updated
6 years ago
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Hi, I really like this software in principal and am trying to get it to work! When I open the software I can load my files - I'd like to do this using gz files though, are fastq.gz files not supported…
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I need to run both `fcs-gx` and `fcs-adaptor` on a lot of genomes. To speed-up things, I was thinking if I could run them both in parallel (on the original genome fasta):
```bash
genome.fas.gz -> …
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Hello,
I am struggling with how to find a way to replicate what you've done in the cactus paper, where GRCh38 and CHM13 genomes have been used to create two "linear pangenomes" (that is pangenomes…
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Thanks for your code!
It seems that the VG features are not available from the gdrive links.
Could you please renew the links?
Thanks!
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Hi,
I am having a very strange problem. So I have a 300-400Mb plant genome. The problem is that when I run GenomeScope2 in the histogram I obtain a 4Mb genome size (results here http://qb.cshl.edu/…
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Thank you for the best software for TE annotation. I use the RepeatModeler for one larger genome TE annotation, and find produce a few of files for rmblast alignment. I check the code ,and find the …