Add screenshots to help page

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Elias Projahn 2022-12-16 14:26:00 +01:00
parent a046ed67c4
commit 254c43b016
6 changed files with 13 additions and 0 deletions

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inst/content/gsea.png Normal file

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@ -16,6 +16,8 @@ from a dropdown menu. To paste your genes as a whitespace separated list of
either HGNC symbols or Ensembl gene IDs (in the form `ENSG00000164362`), change either HGNC symbols or Ensembl gene IDs (in the form `ENSG00000164362`), change
the top dropdown from "Select from list" to the desired input method. the top dropdown from "Select from list" to the desired input method.
![Screenshot of the gene selector](gene_selector.png)
## Which information does the tool give for my genes of interest? ## Which information does the tool give for my genes of interest?
Once your genes have been selected, the user interface will automatically switch Once your genes have been selected, the user interface will automatically switch
@ -33,6 +35,8 @@ their top right corner):
4. A detailed table (downloadable as CSV) including scores, ranks and 4. A detailed table (downloadable as CSV) including scores, ranks and
percentiles as well as the computed parameters for your genes. percentiles as well as the computed parameters for your genes.
![Screenshot of information on custom genes](custom_genes.png)
## How can I change the parameters of the method? ## How can I change the parameters of the method?
The panel on the left side offers multiple controls to change the parameters of The panel on the left side offers multiple controls to change the parameters of
@ -46,6 +50,8 @@ as well as their weight contributing to that score. These are the criteria:
| Expression level | The median expression level (logarithmic) is determined for each gene across all samples. Alternatively, it is possible to select the mean expression. | 25% | | Expression level | The median expression level (logarithmic) is determined for each gene across all samples. Alternatively, it is possible to select the mean expression. | 25% |
| Expression variation | Measure of the variation of a genes expression between samples. By default, the interquartile range (IQR) normalized by the median is used. Other options include the IQR itself, the standard deviation and the coefficient of variation. | -25% | | Expression variation | Measure of the variation of a genes expression between samples. By default, the interquartile range (IQR) normalized by the median is used. Other options include the IQR itself, the standard deviation and the coefficient of variation. | -25% |
![Screenshot of the method parameter controls](method_parameters.png)
## What does the GSEA tab do? ## What does the GSEA tab do?
The "GSEA" tab provides a simple gene set enrichment analysis using The "GSEA" tab provides a simple gene set enrichment analysis using
@ -54,6 +60,8 @@ of over-representation of annotated genes in the top part of the ranking which
is a way to insinuate the biological or at least scientific relevance of the is a way to insinuate the biological or at least scientific relevance of the
scoring. scoring.
![Screenshot of the GSEA plot](gsea.png)
## How can I perform analyses of ubiquity relative to my own expression dataset? ## How can I perform analyses of ubiquity relative to my own expression dataset?
Because of the computational requirements we can not publicly provide this Because of the computational requirements we can not publicly provide this

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@ -36,3 +36,8 @@ h5 {
.container td { .container td {
padding: 4px; padding: 4px;
} }
.container img {
max-width: 100%;
height: auto;
}