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I am trying to get the highly variable genes for a data set. The data set was normalized by fitting a negative binomial model and using the residuals as expression levels. This gives mean gene express…
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Dear Team,
Thank you for the great tool TAPAS.
I have aligned my RNA-Seq reads against human genome using (GRCh38) genome version and gene annotation model from Gencode v27.
Can I provide the…
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翻译任务 [maEndToEnd：An end to end workflow for differential gene expression using Affymetrix microarrays](https://www.bioconductor.org/packages/maEndToEnd/) (R package version 2.4.0)
源文件 BiocWorkflow_…
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### Hello everyone!
As you know, for my last issue I tried to extract de Differentially expressed genes from a table. But couldn't do it since the genes I was getting where the same. For each one o…
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I think it's important to contextualize diffexp results by what these genes _do_, biologically. There are multiple "levels" at which we could support this:
1) Just link out to wikigene / human prote…
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Dear Authors,
I used tradeSeq for my monocle3 object to find DEG of various lineage along trajectory. Output provides gene names, waldStat, pvalue and meanLogFC.
This is my first time doing tr…
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Trying to use GSEA function. My input is a .rnk file of log2 genes (all genes, ~ to what is done GSEA Java-based link) and a gmt file for pathways.
```
GSEA(input.ds = system.file('extdata', 'test…
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e.g. beta-alanine biosynthesis I http://plantreactomedev.oicr.on.ca/PathwayBrowser/#DIAGRAM=1119567&PATH=2894885,2744345,2744343,5655122&DTAB=EX
There is only one gene product LOC_Os02g43220 associa…
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Hi Tauno:
Thank you for the ClustVis package which is very helpful for my project!
I wish CustVis had another function (as pull-down menu) to subtract a list of genes of my interest. For example, at…
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Please allow export of differential expression results - the list of genes together with statistics (p-value, average and stdev in each group).
CC: @alokito