broadinstitute ssGSEA2.0 issues

broadinstitute / ssGSEA2.0

Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)

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Number of cores in ssgsea-cli.R is hardcoded but should be set using command line arguments

#33 sstein93 opened 1 week ago
0
ssGSEA2 error in HPC environments when available cores is not equal to total number of cores.

#32 cwlkr opened 1 month ago
0
Error in ssGSEA2(input.ds = opt$input.ds, output.prefix = opt$output.prefix, : object 'm' not found

#31 cindysimm opened 1 month ago
0
Error GUI script in R 4.3.3 vs R 4.3.2

#30 Kaddea opened 3 months ago
0
How do I perform ssGSEA on single cell RNA seq data when it has already been preprocessed in Seurat version v5?

#29 Saumya513 opened 7 months ago
0
Optimal Gene Filtering for TPM Expression Data in RNA-seq Analysis: Impact of Non-Protein Coding Biotypes on Hallmark Enrichment Analysis

#28 snijesh opened 8 months ago
1
More input genes, better results?

#27 LynnChan99 closed 8 months ago
2
Different distributions in different RNAseq cohorts

#26 GuillC closed 11 months ago
3
converted to R package

#25 nicolerg closed 1 year ago
2
Output only for 11 signatures

#24 julia-aguade closed 1 year ago
2
Update ssgsea-cli.R

#23 annapamma closed 2 years ago
0
Using the R script, is there any way I can extend the maximum gene set size?

#22 Fatberg closed 3 years ago
1
p values

#21 storgatan closed 3 years ago
1
Small test.gct file works fine but whole data.gct gives incorrect number of dimensions error

#20 qianxu05172019 closed 3 years ago
1
problems with PTM-Signature Enrichment Analysis (PMT-SEA) by using ssGSEA-gui.R

#19 wanghao1991217 closed 3 years ago
1
why different ssGSEA-scores when i run with the same data and parameter?

#18 lixuenan closed 3 years ago
1
Minor fix on paragraph 28 & line 85

#17 kant closed 1 year ago
1
Combining enrichment scores

#16 erikfel97 closed 1 year ago
0
Constant Error

#15 erikfel97 closed 3 years ago
2
can not run example gct file PI3K_pert_logP_n2x23936.gct

#14 jzsbioinfo closed 4 years ago
3
Sorry，last problem that the result of local R ssGSEA is

#13 Lilab-SYSU closed 4 years ago
3
Error using single .gct file

#12 shwetajohari closed 4 years ago
4
Cant use ssGSEA

#11 shwetajohari closed 4 years ago
0
why the result scores of GenePattern ssGSEAProjection are different from the results R version？

#10 Lilab-SYSU closed 4 years ago
2
bug in combine mode

#9 yksaito closed 1 year ago
2
Error while sourcing the file ssgsea-cli.R

#8 Manikgarg closed 5 years ago
2
Errors about ssGSEA

#7 realdwang closed 4 years ago
1
Between is misspelled in help text

#6 aroon-sg-zz closed 5 years ago
1
socket issue

#5 juechenyang closed 5 years ago
2
The exact meaning of "general performance improvements"

#4 kvittingseerup closed 5 years ago
2
Very sparse documentation on converting files to GCT format.

#3 draperjames closed 3 years ago
3
ssGSEA2 bug in parse.gctx

#2 rpeys closed 5 years ago
1
ssgsea-cli.R: 'names' attribute must be same length as the vector

#1 u909090 closed 5 years ago
4