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For the 1001 Genomes project we have 23 *A. thaliana* genomes that are 150 Mbp. Each genome will have its own annotation of >30,000 genes for a total of 750,000 paths. This requires some consideratio…
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Hi Agora-team,
I have been trying to learn how to construct ancestral genome karyotype for ever, and was never been able to understand it properly and then saw your paper and I was like wow. It is …
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This issue contains monthly updates to the ranked list of PubMed papers for curation. The full list can be found [here](https://github.com/tanayshah2/bioregistry/blob/5560dcf284f2c0309287e0a5a551e435e…
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I thought it would be interesting to compare how tsinfer+tsdate do against the new "Threads" program (https://pypi.org/project/threads-arg/0.1.0/).
As a test, I have a stdpopsim model with 2 chimp …
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I am using Jbrowse version 1.16.9 to create my Genome Browser.
I have multiple XYplots in which I am using `autoscale:local`. This is an important feature or for me, as I have some extreme values …
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we could try building a collection of ~100 or more genomes from various big binning efforts (Tara, human microbiome, etc.) and classify each of their contigs as in #51. After manual inspection and cur…
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the genome was ultra large scale about 23G, after I motif the assembly via the juicerbox, and conduct the next step with the command "bash ~/software/3d-dna-master/run-asm-pipeline-post-review.sh -r .…
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not sure this is the right place to ask, but: is there a ball park estimate of how many reads/ bases are at least required to reliably identify an isolate of some bacterium? in terms of coverage, 1x s…
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It looks like the memory usage of MACS2 scales linearly with the input size, in particular the number of tags in my case. Perhaps because during the first step it stores the tag information in memory.…
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I have just used cactus minigraph to align 10 ~ 1.1 Gb genomes with the commands:
```
cactus-minigraph \
./jobstore \
../genome_seq_file.txt \
${prefix}.sv.gfa \
--reference $r…