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Hey,
I have been working on metagenomic data that comprises yeast and bacteria in the microbiome . We did a WGS on our samples in Illumina platform. From the sequencing results, I'm able to resolve…
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Hi Stephen,
I have a question regarding the annotations for the gene_ids identified from the pan-genomic profiling. As I understand, these gene_ids are PATRIC gene IDs, and while I can find annotat…
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This issue depends on the numbers of genomes/ cds/ rna/ etc that are to be downloaded.
As the process goes on the amount of RAM used by the r-session progressively increases to a point where the ent…
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Hello,
I see that LUMPY is coming from the same lab as GEMINI, so I was wondering if there is a workflow for running annotating and filtering variants called by LUMPY.
Ideally, the pipeline would …
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Hello,
Thanks for this tool!
When running the following:
`ezaai calculate -i ./DB -j ./DB -o ./output -mtx ./output/Matrix -t 32`
And after a long wait over weekend (~230 genomes!)... I go…
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We have previously discussed adding metagenomics compatibility by running fly in meta mode and doing genome binning.
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One of the issues I may be facing in running AUGUSTUS on a new genome is the possibility that it has substantial variations in GC% content in different parts of the genome. As has been noted elsewher…
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#### Summary:
For large comparison runs (e.g. 2500 input genomes) the process of generating NUCmer jobs is slow, and starts to slow rapidly after about 80k command-lines are created.
I think thi…
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Hi
Two features which I think would be really useful in sequenceTubeMap are:
1. On hover over a node or path more information is displayed i.e. all paths passing through the node and the sequenc…
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I am trying to analyse some simulated datasets but am getting very large results for phi_pool (i.e. 1e50).
I have some simulated datasets that I generated using the program fastsimbac that I would …