KwatMDPhD / GSEA.jl

The official command-line program for gene-set-enrichment analysis (GSEA) 🏔️

https://gsea-msigdb.org

KwatMDPhD/GSEA.jl Issues

Enlarge axis titles
Updated 8 months ago
Write settings.
Updated a year ago
Remove 0.5 from `KLioM` and `KLioP`.
Closed a year ago
Highlight the peak(s) with `ks` and the area with the other algorithms.
Closed a year ago1
Write instructions for `julia` interface.
Closed a year ago2
Make tutorials.
Updated a year ago
Build a graphic user interface.
Updated a year ago
Use `@warn` instead of `@error`.
Closed a year ago
Add normalization settings.
Closed a year ago
Make `gsea data-rank` plot.
Closed a year ago
Implement `gsea convert-gmt` and `gsea convert-gct-cls`.
Closed a year ago
Set individual exponent with `.json` or `.tsv`.
Updated a year ago7
Go with all JSON or all CLI interface.
Closed a year ago
Write out additional dict containing running enrichment score data for all sets
Closed a year ago4
Change Enrichment Plot Positive Color
Closed a year ago8
Make the new algorithm computation faster
Closed a year ago2
Fix feature y-axis
Closed 2 years ago
Debug `ks` and `cidac` plotting the same plots
Closed 2 years ago
Logic error in selecting which sets to plot
Closed 2 years ago9
Check the number of sets for plotting and more
Closed 2 years ago2
Fix p-value adjustment
Closed 2 years ago2
Plot a heat map or delete `plot/` for `data-ranks`
Closed 2 years ago
Use good .html format
Closed 2 years ago13
data-rank fails with error
Closed 2 years ago5
Remove temporary `PacakgeCompiler.jl`
Closed 2 years ago
0.11.3 Fails to Build
Closed 2 years ago3
0.11.2 extracted from tarball fails when running gsea -h
Closed 2 years ago3
0.11.1 Build Tests Fail when building app tarball
Closed 2 years ago3
Error building docker container with 0.11.0
Closed 2 years ago6
For `data-ranks` output `set_x_sample_x_significance.tsv`
Closed 2 years ago1
Consider flipping table, plot, and all
Closed 2 years ago
Make target_x_sample_x_number.tsv 1st column the row names
Closed 2 years ago2
Plotting: Long gene set names not scaling properly in plot titles
Closed 2 years ago5
Consider making `compare` an independent command-line tool
Closed 2 years ago
Write out additional dict containing permuted enrichment scores for all sets
Closed 2 years ago4
Plotting: Flip Horizontal
Closed 3 years ago1
Embedded plotly CDN call-out in report links to "latest" tag instead of versioned
Closed 3 years ago
Statistics: Sorting of tsvs appears Negative to Positive, reverse would be preferred
Closed 3 years ago1
Plotting: Annotate Maximum deviation from zero on plot
Closed 3 years ago
Plotting: Change Hover Marker Color
Closed 3 years ago4
Plotting: 0.8.1 Enrichment Plots have "click to insert [x] title" text on HTML pages
Closed 3 years ago1
Rename `power` to be `exponent`
Closed 3 years ago
Plotting: Saving plot from the HTML as PNG uses generic name
Closed 3 years ago1
Error duplicated genes
Closed 3 years ago
Use full name for algorithm
Closed 3 years ago
List open-source contributors
Closed 3 years ago1
Update significance calculations
Closed 3 years ago
Match FDR with desktop
Closed 3 years ago3
Add `Normalized Enrichment` (`NES`)
Closed 3 years ago
Considering selecting sets in place
Closed 3 years ago