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**User story**
User wants to perform computation on (a subset of) the data that is used for visualization in Vitessce. For example, to perform a differential expression test between two groups of c…
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> Background
> The drug discovery and development pipeline is a long and arduous process that inevitably hampers rapid drug development. Therefore, strategies to improve the efficiency of drug develo…
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Perhaps applies to differential gene expression in general; If we want to find cluster specific genes, we have to compare the expression in cluster A to its most similar cluster. Otherwise, the rest o…
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Hi,
I am a beginner and want to analyze my differentially expressed gene.
So, could you please guide me whether I can upload log scale intensity for analysis in SAM. For my log scale probe/gene inte…
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## The need
When using `anvi-script-visualize-split-coverages` I realised I'd like to visualise differential coverage for individual genes or operons across samples. This is especially useful for m…
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Unless you are Robert Baertsch, its hard to know what a tool actually does.
For example, on Contrast Two Groups page: https://medbook.ucsc.edu/wb/scv?study=prad_wcdt&contrast=AyBE34r7m89rmn6Q3
Items l…
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Here are some of the features to (possibly) be included.
Priority:
- [x] Plot of gene expression per ROI
- [x] Differential gene expression analysis
- [x] Interactive plot (top DE genes)
- [x] …
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During the Edinburgh STSM we discovered that mitochondrial and ribosomal genes show up more often than expected in the differential expression results.
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13th-17th March, proposed schedule:
### Day 1
- Introduction to NGS analysis methods
- Introduction to R and Unix
- Practical: Unix
- Practical: R
### Day 2
- Graphics in R
- Alignment basics and RNAs…
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