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"Is_Gender_Gene": 1 marks the gene as gender gene. Expectations is that gene will then be used as a gender gene. However, this only works of this gene is the first in the list of Genes:[]
This work…
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Thank you so much for your tool! I have genome files and annotation GFF files for two species, and I mainly want to use TOGA to identify orthologs between them. However, when I run it, the gene IDs an…
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Hi,
I am working with XCell and I am curious about the origin and how you obtained the gene signatures.
If I am correct, there are available on the `xCell.data.rda` object you have on the repos…
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### This issue was found on Biofilter 2.4.2
I ran pathway annotation on a list of 55889 genes; biofilter ignored 22674 unrecognized identifiers and 114 ambiguous and returned outputs for 18482 uniq…
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1. The following data is a sample
```
refGene refChr refId referenceStart referenceEnd queryGene queryChr queryId queryStart queryEnd strand score
gene:SORBI_3003G287000 3 3020 62010135 62012133 Z…
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Hi,
I see how to filter a gene list for most snv/indels in issue Filter a gene list #1964.
However, I want to look at intergenic variants as well. Annovar includes other info in the Gene.refGene…
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Did you have a chance to explore mapping the gene names to Ensembl IDs?
I'm looking into that now and don't know if there's a recommended way.
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Hi,
Could you provide more details on how the background gene list is handled? Does this mean the background gene list is adjustable? If I specify a custom background gene list, does the algorithm …
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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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This issue aims to model simulation agent parameters using a DNA and genes-inspired approach. By structuring agent parameters, such as “learning rate,” as genes within a genome, we can encode, decode,…