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Hi!
I'm trying to use STAR to index an axolotl genome (~900MB).
When I run the following command - `STAR --runThreadN 1 --runMode genomeGenerate --genomeDir /Users/kushagrasharma/coding/chenlab/s…
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First off, thank you for the fantastic tool @jtlovell!
I noticed that there are some old issues (#121 and #127) where folks were interested in highlighting a single gene or small region. I have enc…
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Downloading reference genomes hg18 and hg19 might be unavoidable but downloading hg19 is too much. We should remove some tests that require large resources.
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Hi! I'm using halBranchMutations to identify mutations arising in each genome in a large hal alignment to try to estimate deleterious mutations in each genome. So far I've been looking at SNPs identif…
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Hello Developers,
I've successfully built a pan-genome consisting of 12 genomes using MC without any problems. Thank you for your kind descriptions on GitHub.
Now, I'm planning to find more SVs …
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If you have a lot of genomes, your project XML is going to be huge. If all the information is the same, we should be able to get the taxon ID from the data file or even the file name.
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We are work…
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Hello again.
I am trying to assemble the genome of a dikaryon fungus, I think for the assembly is the same that it being diploid. I only have Hifi reads. I used first just: hifiasm -o amexicana -t 32…
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Hi, Thanks for a great R package.
we have used the IG10 method of phyloglm. We are using it to associate (the presence of) orthologous groups of genes (OGs) within a species to the binary trait "cl…
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Hello,
I am interested in running RFPlasmid on an Enterobacteriaceae dataset and I see there is a precomputed database for it.
However, I am wondering whether it would not be wise to create an u…
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Dear Agora group,
I am reconstructing ancestral gene orders using the AGORA software. The main challenge I am facing is that I have identified hundreds of CARs with decreasing numbers of genes. The n…