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Will need this to highlight in the eventual publication
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Hi Toshiyuki,
Congrats on developing this tool! I have a question on potential application of this gene cluster analysis:
I have RenSeq contigs and gene models. I would like to map them to a re…
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Hi!
I am using Hmmer3 with bivalve genomes looking for 70-80 aa genes. BUSCO scores for the genomes are in the upper 90s (96-98% complete for BUSCO Metazoa) and most assemblies are chromosome-scale…
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## Target functionality
tINIT is an (umbrella name for an) algorithm that obtains a subset of a genome-scale metabolic model based on the gene expression (typically in healthy/diseased bulk tissue …
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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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Hi James,
I'm trying to compare draft reconstructions of genome scale models for closely related strains of a species. Does sbml-diff have a functionality to only print the changes (maybe with a re…
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In the discussion with @Midnighter it came up that there should be a generic support for compressed files for the various io modules. I.e. cobrapy should support the reading and writing of compressed …
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Posted here!
https://taylorreiter.github.io/2022-07-28-From-raw-metagenome-reads-to-phyloseq-taxonomy-table-using-sourmash-gather-and-sourmash-taxonomy/
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Hi all,
Thanks for this great tool! I have a question on its use though.
Could the user examine the binding specificity of the motifs in your models by querying a sequence > 10000b introducing an …