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piano
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9
votes
7
replies
20k
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Single Sample GSEA (ssGSEA) and dynamic range of expression
ssgsea
gsva
piano
egsea
updated 4 months ago by
amin8w
▴ 10 • written 6.8 years ago by
sina.nassiri
▴ 130
3
votes
8
replies
2.4k
views
Error: 'exprs<-' is not an exported object from 'namespace:affy'
affy
limma
piano
updated 4.6 years ago by
James W. MacDonald
65k • written 4.6 years ago by
abolfazl.nikakhtar
• 0
3
votes
2
replies
1.1k
views
How is microarray normalization done in PIANO?
piano
microarray
updated 6.5 years ago by
James W. MacDonald
65k • written 6.5 years ago by
rf
• 0
3
votes
3
replies
1.6k
views
Error while running piano's runGSA
piano
runGSA
updated 7.9 years ago by
Leif Väremo
▴ 70 • written 7.9 years ago by
rubi
▴ 110
2
votes
2
replies
1.2k
views
Using GeneSetCollection objects of GSEABase in piano package
piano
gseabase
7.3 years ago
Lluís Revilla Sancho
▴ 730
2
votes
4
replies
1.3k
views
Running time of piano's runGSA
piano
runGSA
runtime
updated 7.3 years ago by
Leif Väremo
▴ 70 • written 7.3 years ago by
rubi
▴ 110
0
votes
3
replies
1.7k
views
piano runGSA with input from DESEQ2
deseq2
gene ontology
piano
7.5 years ago
simonp.snoeck
• 0
0
votes
1
reply
1.2k
views
Mixing list from Piano package output
Piano
List
updated 9.0 years ago by
Leif Väremo
▴ 70 • written 9.0 years ago by
nonCodingGene
▴ 10
0
votes
9
replies
1.7k
views
unable to load rsbml for piano reporter metabolite analysis
rsbml
piano
libsbml
gene set enrichment analysis
updated 5.5 years ago by
Michael Lawrence
★ 11k • written 5.5 years ago by
jan.strauss
• 0
0
votes
5
replies
2.3k
views
loadGSC() Piano package
piano
updated 9.1 years ago by
Leif Väremo
▴ 70 • written 9.1 years ago by
nonCodingGene
▴ 10
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Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 30
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative?
by
Michael Love
41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
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