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Can I use GALBA for predicting the genes of a gene family?
Suppose, for example, that I'm interested in finding all cytochrome P450s in a particular species. It would be very nice to be able to giv…
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Dear author,
I am very interested in the methodology proposed in your work. Could you please provide some insights into the functions of neigh_cons_score.py, genomic_context_conservation_table.py, …
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Hello,
Thank you for developing the tool. :)
[It](https://github.com/PacificBiosciences/paraphase?tab=readme-ov-file) is stated that:
> Paraphase takes all reads from a gene family, realigns to…
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Hi!
I am interested in exploring alignments and gene trees of the HOG orthogroups produced by OrthoFinder to evaluate / spot check OrthoFinder output. I am also interested in using HOG alignments a…
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Hi !
I get this error sometimes for species with few genomes, I know that the recommended is 15 genomes at least, but I'm trying to get a distribution of the gamma tendency to decide at what point …
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Hello,
I'm working with a single cell dataset, which has imperfect cell isolation, and has some mis-labeling of counts between cells. We can estimate the level of "contamination" for each cell, for…
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* **PTHR ID & PTN node:**
GO:0031623 | receptor internalization | IBA with P50570 , 727949 , 71096 , 2513 , PTN008520579
* **Sequences with problematic annotation (ID + gene/protein name):**…
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All the miRNA_gene_family are information artifacts, but they should probably be classes of (material) miRNA, and superclass of their respective (RNA) members. If they are, then the "gene family" is …
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你好，
在文章方法的这一部分：
【Sequence annotation】
Variable regions, including FRs and CDRs were inferred using IgBLAST (Ye et al., 2013). Next, we numbered the gene sequences according to the IMGT numbering cr…
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Hey Team! Thanks for the package.
I am using it to simulate single cell data. Everything works fast enough (within a minute) before I reach the step to generate new counts.
- my sce object is 10…