Releasing American Robin.

GSEA-MSigDB · Apr 13, 2023 · 6c535c2 · 6c535c2
1 parent 3f1c322
commit 6c535c2
Show file tree

Hide file tree

Showing 28 changed files with 34,651 additions and 31 deletions.
diff --git a/Project.toml b/Project.toml
@@ -1,7 +1,7 @@
 name = "GSEA"
 uuid = "f74a9ba8-6f1f-48f2-98b6-a79c46cc06f7"
 authors = ["KwatMDPhD <[email protected]>"]
-version = "0.16.0"
+version = "0.16.1"
 
 [deps]
 BioLab = "1fe83854-81c0-42f7-afc9-71ba9af673ca"

diff --git a/README.md b/README.md
@@ -1,4 +1,4 @@
-The ✨ new (_not-yet-official_) ✨ (Gene-) Set Enrichment Analysis 🧬
+🧬 The ✨ new (_not-yet-official_) ✨ (Gene-) Set Enrichment Analysis.
 
 💁 Join the [bioinformatics community](https://discord.gg/tKh7fguMrD) to get live help on GSEA (and everything bioinformatics) 🎪 ⌨️ 🔰 💡
 
@@ -46,8 +46,12 @@ mkdir output
 gsea metric-rank setting.json target_x_sample_x_number.tsv feature_x_sample_x_number.tsv set_features.json output
 
 ls -l output
+```
+
+#### 4. Look at the results
 
-head -2 output/*.tsv
+```bash
+head -3 output/*.tsv
 
 open output/plot/*.html
 ```

diff --git a/gsea-sysimg-0.16.1-julia-1.8.5-darwin-aarch64.tar.gz b/gsea-sysimg-0.16.1-julia-1.8.5-darwin-aarch64.tar.gz
diff --git a/src/GSEA.jl b/src/GSEA.jl
@@ -632,9 +632,9 @@ Run metric-rank (standard) GSEA.
 end
 
 """
-The ✨ new ✨ (Gene-) Set Enrichment Analysis 🧬
+🧬 The ✨ new ✨ (Gene-) Set Enrichment Analysis.
+📍 Learn more at https://github.com/KwatMDPhD/GSEA.jl.
 """
-
 @main
 
 end
diff --git a/test/outer_loop.jl b/test/outer_loop.jl
@@ -8,7 +8,7 @@ using GSEA
 
 # --------------------------------------------- #
 
-di = "outer_loop"
+di = joinpath(@__DIR__, "outer_loop")
 
 pip = mkpath(joinpath(di, "python", "input"))
 

diff --git a/test/outer_loop/output/plot/coller_myc_targets_up.html b/test/outer_loop/output/plot/coller_myc_targets_up.html
diff --git a/test/outer_loop/output/plot/hallmark_myc_targets_v2.html b/test/outer_loop/output/plot/hallmark_myc_targets_v2.html
diff --git a/test/outer_loop/output/plot/lee_liver_cancer_hepatoblast.html b/test/outer_loop/output/plot/lee_liver_cancer_hepatoblast.html
diff --git a/test/outer_loop/output/plot/pid_s1p_s1p1_pathway.html b/test/outer_loop/output/plot/pid_s1p_s1p1_pathway.html
diff --git a/test/outer_loop/output/plot/reactome_anchoring_fibril_formation.html b/test/outer_loop/output/plot/reactome_anchoring_fibril_formation.html
diff --git a/test/outer_loop/output/plot/reactome_laminin_interactions.html b/test/outer_loop/output/plot/reactome_laminin_interactions.html
diff --git a/test/outer_loop/output/plot/reactome_rrna_modification_in_the_nucleus_and_cytosol.html b/test/outer_loop/output/plot/reactome_rrna_modification_in_the_nucleus_and_cytosol.html
diff --git a/test/outer_loop/output/plot/schlosser_myc_targets_and_serum_response_dn.html b/test/outer_loop/output/plot/schlosser_myc_targets_and_serum_response_dn.html
diff --git a/test/outer_loop/output/plot/schuhmacher_myc_targets_up.html b/test/outer_loop/output/plot/schuhmacher_myc_targets_up.html
diff --git a/test/outer_loop/output/plot/tian_tnf_signaling_via_nfkb.html b/test/outer_loop/output/plot/tian_tnf_signaling_via_nfkb.html
diff --git a/test/runtests.jl b/test/runtests.jl
@@ -1,5 +1,3 @@
-using Revise
-
 using Test
 
 using BioLab