Showing : egsea • reset
9
votes
7
replies
20k
views
Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea gsva piano egsea
updated 4 months ago by ▴ 10 • written 6.7 years ago by ▴ 130
6
votes
6
replies
2.8k
views
EGSEA error during report generation: "only 0's may be mixed with negative subscripts"
EGSEA
updated 3.5 years ago by • 0 • written 4.8 years ago by ▴ 70
2
votes
7
replies
1.8k
views
EGSEA - failing to write report
EGSEA write
updated 7.2 years ago by ▴ 40 • written 7.2 years ago by ▴ 20
2
votes
3
replies
1.6k
views
EGSEA usage with microarray data (with vooma)?
EGSEA gene set testing vooma limma voom gsea
7.3 years ago • updated 7.2 years ago Pekka Kohonen ▴ 190
1
vote
1
reply
1.1k
views
EGSEA : unable to plot heatmaps.
EGSEA R bioconductor
6.6 years ago RV • 0
1
vote
0
replies
983
views
EGSEA install licensed KEGG data
EGSEA KEGG EGSEAdata
6.2 years ago john.thompson ▴ 10
1
vote
0
replies
709
views
EGSEA - clarification of values in the Stats Table
egsea limma
4.6 years ago rocanja ▴ 60
0
votes
1
reply
264
views
EGSEA with Affymetrix data
EGSEA
updated 5 months ago by 65k • written 5 months ago by • 0
0
votes
3
replies
1.9k
views
Problem in kegga() and others getting data from KEGG after switch from http to https
limma KEGGREST EGSEA
updated 22 months ago by 3.8k • written 22 months ago by ★ 2.0k
0
votes
4
replies
1.9k
views
EGSEA: how does the program generate the value for the up or down regulation of gene sets or pathways
pathways gsea egsea gage
updated 7.6 years ago by ▴ 40 • written 7.6 years ago by • 0
0
votes
1
reply
737
views
EGSEA::egsea - Parallelization issue and "Error in array(col.rgb[, i], dim(node.rgb)[3:1]) : negative length vectors are not allowed"
egsea EGSEA123
12 months ago neilzhao ▴ 30
0
votes
2
replies
1.5k
views
Ensemble EGSEA (EGSEA): base GSA method failures
egsea
7.0 years ago irizarnaunk • 0
0
votes
5
replies
2.6k
views
EGSEA generateReport() error "no adj nodes"
EGSEA EGSEA123
updated 6.4 years ago by ▴ 40 • written 6.4 years ago by ★ 2.0k
0
votes
0
replies
838
views
Contrast matrix for a continuous covariate - for EGSEA algorithm
design and contrast matrix egsea
6.2 years ago Stefano Mangiola ▴ 10
0
votes
1
reply
2.2k
views
DGEList remove/exclude rows with entrezgene = 'NA'
edger dgelist NA egsea
updated 6.2 years ago by 50k • written 6.2 years ago by • 0
0
votes
2
replies
1.2k
views
How an index is built for each gene set collections using buildCustomIdx() indexing function of EGSEA package?
EGSEA edgeR biomaRt limma RNA-seq
4.6 years ago fgol ▴ 10
0
votes
1
reply
362
views
Is it possible to use pre-ranked list in EGSEA?
EGSEA EGSEAdata EGSEA123 DifferentialExpression
updated 7 months ago by 65k • written 7 months ago by • 0
17 results • Page 1 of 1
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Answer: Different number of exons in reference genome affects DEXSeq analysis by Alejandro Reyes ★ 1.9k
Likely the new annotation that you are using has more annotated isoforms, and thus the exons are splitted into more disjoint exonic bins. I…
Answer: Adding columns to DEXSeqResults object by Alejandro Reyes ★ 1.9k
I'd have a look into the match function, that could give you a mapping between the ids in the dxr1 object and your data frame of gene symbo…
Answer: rlog transformation by Michael Love 41k
It is dependent on the other samples in the dataset.
Answer: ONT long-read RNA sequencing - data analysis options by Michael Love 41k
*"This worked really well for brain but has not work as well for lung as I get #N/A for many padj"* See the vignette for the cause of th…
Answer: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by Michael Love 41k
Starting from the very top, do you understand the error? You need to provide sample info that matches 1-to-1 the columns of the counts matr…
Votes
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
Using GRanges and IRanges to simply get all chromosome data
A: Using GRanges and IRanges to simply get all chromosome data
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