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Commit 26ec01c

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agoweragower
committed
Updated parameter files
- Changed /restricted/projectnb/ path to /rprojectnb/ shortcut for convenience in all parameter files - Added KEGG MEDICUS gene sets to 2023.2.Hs parameter file - Added 2024.1.Hs and 2024.1.Mm parameter files
1 parent bcd8880 commit 26ec01c

14 files changed

+52
-24
lines changed

‎GSEAParameters_v2023.1.Hs.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/Human_NCBI_Gene_ID_MSigDB.v2023.1.Hs.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.biocarta.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.kegg.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.pid.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.reactome.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.wikipathways.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c3.mir.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c3.tft.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c5.go.bp.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c5.go.cc.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/c5.go.mf.v2023.1.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Hs/h.all.v2023.1.Hs.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/2023.1.Hs/Human_NCBI_Gene_ID_MSigDB.v2023.1.Hs.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.biocarta.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.kegg.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.pid.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.reactome.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c2.cp.wikipathways.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c3.mir.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c3.tft.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c5.go.bp.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c5.go.cc.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/c5.go.mf.v2023.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Hs/h.all.v2023.1.Hs.entrez.gmt

‎GSEAParameters_v2023.1.Mm.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/Mouse_NCBI_Gene_ID_MSigDB.v2023.1.Mm.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/c2.cp.biocarta.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/m2.cp.reactome.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/m2.cp.wikipathways.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/m3.mirdb.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/m3.gtrd.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/m5.go.bp.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/m5.go.cc.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/m5.go.mf.v2023.1.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.1.Mm/mh.all.v2023.1.Mm.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/2023.1.Mm/Mouse_NCBI_Gene_ID_MSigDB.v2023.1.Mm.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/2023.1.Mm/c2.cp.biocarta.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/m2.cp.reactome.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/m2.cp.wikipathways.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/m3.mirdb.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/m3.gtrd.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/m5.go.bp.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/m5.go.cc.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/m5.go.mf.v2023.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.1.Mm/mh.all.v2023.1.Mm.entrez.gmt

‎GSEAParameters_v2023.2.Hs.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/Human_NCBI_Gene_ID_MSigDB.v2023.2.Hs.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.biocarta.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.kegg_legacy.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.pid.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.reactome.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.wikipathways.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c3.mir.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c3.tft.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c5.go.bp.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c5.go.cc.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/c5.go.mf.v2023.2.Hs.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Hs/h.all.v2023.2.Hs.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/2023.2.Hs/Human_NCBI_Gene_ID_MSigDB.v2023.2.Hs.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.biocarta.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.kegg_legacy.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.kegg_medicus.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.pid.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.reactome.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c2.cp.wikipathways.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c3.mir.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c3.tft.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c5.go.bp.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c5.go.cc.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/c5.go.mf.v2023.2.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Hs/h.all.v2023.2.Hs.entrez.gmt

‎GSEAParameters_v2023.2.Mm.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/Mouse_NCBI_Gene_ID_MSigDB.v2023.2.Mm.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/c2.cp.biocarta.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/m2.cp.reactome.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/m2.cp.wikipathways.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/m3.mirdb.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/m3.gtrd.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/m5.go.bp.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/m5.go.cc.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/m5.go.mf.v2023.2.Mm.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/2023.2.Mm/mh.all.v2023.2.Mm.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/2023.2.Mm/Mouse_NCBI_Gene_ID_MSigDB.v2023.2.Mm.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/2023.2.Mm/c2.cp.biocarta.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/m2.cp.reactome.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/m2.cp.wikipathways.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/m3.mirdb.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/m3.gtrd.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/m5.go.bp.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/m5.go.cc.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/m5.go.mf.v2023.2.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2023.2.Mm/mh.all.v2023.2.Mm.entrez.gmt

‎GSEAParameters_v2024.1.Hs.txt

+14
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,14 @@
1+
collapse false
2+
include_only_symbols true
3+
make_sets true
4+
mode Max_probe
5+
norm meandiv
6+
nperm 1000
7+
plot_top_x 10000
8+
rnd_seed 1234
9+
scoring_scheme weighted
10+
set_max 500
11+
set_min 15
12+
zip_report false
13+
chip /rprojectnb/cbmhive/MSigDB/2024.1.Hs/Human_NCBI_Gene_ID_MSigDB.v2024.1.Hs.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/2024.1.Hs/c2.cp.biocarta.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c2.cp.kegg_legacy.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c2.cp.kegg_medicus.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c2.cp.pid.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c2.cp.reactome.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c2.cp.wikipathways.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c3.mir.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c3.tft.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c5.go.bp.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c5.go.cc.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/c5.go.mf.v2024.1.Hs.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Hs/h.all.v2024.1.Hs.entrez.gmt

‎GSEAParameters_v2024.1.Mm.txt

+14
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,14 @@
1+
collapse false
2+
include_only_symbols true
3+
make_sets true
4+
mode Max_probe
5+
norm meandiv
6+
nperm 1000
7+
plot_top_x 10000
8+
rnd_seed 1234
9+
scoring_scheme weighted
10+
set_max 500
11+
set_min 15
12+
zip_report false
13+
chip /rprojectnb/cbmhive/MSigDB/2024.1.Mm/Mouse_NCBI_Gene_ID_MSigDB.v2024.1.Mm.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/2024.1.Mm/c2.cp.biocarta.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/m2.cp.reactome.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/m2.cp.wikipathways.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/m3.mirdb.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/m3.gtrd.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/m5.go.bp.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/m5.go.cc.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/m5.go.mf.v2024.1.Mm.entrez.gmt,/rprojectnb/cbmhive/MSigDB/2024.1.Mm/mh.all.v2024.1.Mm.entrez.gmt

‎GSEAParameters_v3.1.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/3.1/msigdb.v3.1.entrez.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/3.1/c2.cp.biocarta.v3.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/3.1/c2.cp.kegg.v3.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/3.1/c2.cp.reactome.v3.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/3.1/c5.bp.v3.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/3.1/c5.cc.v3.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/3.1/c5.mf.v3.1.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/3.1/msigdb.v3.1.entrez.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/3.1/c2.cp.biocarta.v3.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/3.1/c2.cp.kegg.v3.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/3.1/c2.cp.reactome.v3.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/3.1/c5.bp.v3.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/3.1/c5.cc.v3.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/3.1/c5.mf.v3.1.entrez.gmt

‎GSEAParameters_v4.0.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/4.0/msigdb.v4.0.entrez.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/4.0/c2.cp.biocarta.v4.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/4.0/c2.cp.kegg.v4.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/4.0/c2.cp.reactome.v4.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/4.0/c5.bp.v4.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/4.0/c5.cc.v4.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/4.0/c5.mf.v4.0.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/4.0/msigdb.v4.0.entrez.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/4.0/c2.cp.biocarta.v4.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/4.0/c2.cp.kegg.v4.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/4.0/c2.cp.reactome.v4.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/4.0/c5.bp.v4.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/4.0/c5.cc.v4.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/4.0/c5.mf.v4.0.entrez.gmt

‎GSEAParameters_v5.0.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/5.0/msigdb.v5.0.entrez.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/5.0/c2.cp.biocarta.v5.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/5.0/c2.cp.kegg.v5.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/5.0/c2.cp.reactome.v5.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/5.0/c3.mir.v5.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/5.0/c3.tft.v5.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/5.0/c5.bp.v5.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/5.0/c5.cc.v5.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/5.0/c5.mf.v5.0.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/5.0/msigdb.v5.0.entrez.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/5.0/c2.cp.biocarta.v5.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/5.0/c2.cp.kegg.v5.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/5.0/c2.cp.reactome.v5.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/5.0/c3.mir.v5.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/5.0/c3.tft.v5.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/5.0/c5.bp.v5.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/5.0/c5.cc.v5.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/5.0/c5.mf.v5.0.entrez.gmt

‎GSEAParameters_v6.0.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/6.0/msigdb.v6.0.entrez.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/6.0/c2.cp.biocarta.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/c2.cp.kegg.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/c2.cp.reactome.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/c3.mir.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/c3.tft.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/c5.bp.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/c5.cc.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/c5.mf.v6.0.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/6.0/h.all.v6.0.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/6.0/msigdb.v6.0.entrez.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/6.0/c2.cp.biocarta.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/c2.cp.kegg.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/c2.cp.reactome.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/c3.mir.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/c3.tft.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/c5.bp.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/c5.cc.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/c5.mf.v6.0.entrez.gmt,/rprojectnb/cbmhive/MSigDB/6.0/h.all.v6.0.entrez.gmt

‎GSEAParameters_v7.1.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/7.1/Human_NCBI_Entrez_Gene_ID_MSigDB.v7.1.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/7.1/c2.cp.biocarta.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c2.cp.kegg.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c2.cp.pid.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c2.cp.reactome.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c3.mir.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c3.tft.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c5.bp.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c5.cc.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/c5.mf.v7.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.1/h.all.v7.1.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/7.1/Human_NCBI_Entrez_Gene_ID_MSigDB.v7.1.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/7.1/c2.cp.biocarta.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c2.cp.kegg.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c2.cp.pid.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c2.cp.reactome.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c3.mir.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c3.tft.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c5.bp.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c5.cc.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/c5.mf.v7.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.1/h.all.v7.1.entrez.gmt

‎GSEAParameters_v7.3.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/7.3/Human_NCBI_Gene_ID_MSigDB.v7.3.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/7.3/c2.cp.biocarta.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c2.cp.kegg.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c2.cp.pid.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c2.cp.reactome.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c2.cp.wikipathways.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c3.mir.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c3.tft.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c5.go.bp.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c5.go.cc.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/c5.go.mf.v7.3.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.3/h.all.v7.3.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/7.3/Human_NCBI_Gene_ID_MSigDB.v7.3.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/7.3/c2.cp.biocarta.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c2.cp.kegg.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c2.cp.pid.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c2.cp.reactome.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c2.cp.wikipathways.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c3.mir.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c3.tft.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c5.go.bp.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c5.go.cc.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/c5.go.mf.v7.3.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.3/h.all.v7.3.entrez.gmt

‎GSEAParameters_v7.4.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/7.4/Human_NCBI_Gene_ID_MSigDB.v7.4.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/7.4/c2.cp.biocarta.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c2.cp.kegg.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c2.cp.pid.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c2.cp.reactome.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c2.cp.wikipathways.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c3.mir.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c3.tft.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c5.go.bp.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c5.go.cc.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/c5.go.mf.v7.4.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.4/h.all.v7.4.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/7.4/Human_NCBI_Gene_ID_MSigDB.v7.4.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/7.4/c2.cp.biocarta.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c2.cp.kegg.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c2.cp.pid.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c2.cp.reactome.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c2.cp.wikipathways.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c3.mir.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c3.tft.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c5.go.bp.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c5.go.cc.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/c5.go.mf.v7.4.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.4/h.all.v7.4.entrez.gmt

‎GSEAParameters_v7.5.1.txt

+2-2
Original file line numberDiff line numberDiff line change
@@ -10,5 +10,5 @@ scoring_scheme weighted
1010
set_max 500
1111
set_min 15
1212
zip_report false
13-
chip /restricted/projectnb/cbmhive/MSigDB/7.5.1/Human_NCBI_Gene_ID_MSigDB.v7.5.1.chip
14-
gmx /restricted/projectnb/cbmhive/MSigDB/7.5.1/c2.cp.biocarta.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c2.cp.kegg.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c2.cp.pid.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c2.cp.reactome.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c2.cp.wikipathways.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c3.mir.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c3.tft.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c5.go.bp.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c5.go.cc.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/c5.go.mf.v7.5.1.entrez.gmt,/restricted/projectnb/cbmhive/MSigDB/7.5.1/h.all.v7.5.1.entrez.gmt
13+
chip /rprojectnb/cbmhive/MSigDB/7.5.1/Human_NCBI_Gene_ID_MSigDB.v7.5.1.chip
14+
gmx /rprojectnb/cbmhive/MSigDB/7.5.1/c2.cp.biocarta.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c2.cp.kegg.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c2.cp.pid.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c2.cp.reactome.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c2.cp.wikipathways.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c3.mir.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c3.tft.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c5.go.bp.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c5.go.cc.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/c5.go.mf.v7.5.1.entrez.gmt,/rprojectnb/cbmhive/MSigDB/7.5.1/h.all.v7.5.1.entrez.gmt

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