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Topaseq
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Running deprecated packages
ToPASeq
Deprecation
24 months ago
pgauthi1
• 0
0
votes
1
reply
702
views
SPIA function error in ToPASeq
topaseq
updated 5.9 years ago by
Gordon Smyth
50k • written 5.9 years ago by
Aditya Saxena
▴ 10
0
votes
0
replies
923
views
SPIA function error in ToPASeq
ToPASeq
SPIA
pathway analysis
R
6.1 years ago
fawazfebin
▴ 60
0
votes
1
reply
915
views
Problem in ToPASeq installation
topaseq
updated 6.5 years ago by
Martin Morgan
25k • written 6.5 years ago by
Aditya Saxena
▴ 10
0
votes
0
replies
1.6k
views
failed ToPASeq / igraph installation: file present, but not found
installation
package installation
topaseq
igraph
LD_LIBRARY_PATH
7.3 years ago
jan.soderman
• 0
0
votes
1
reply
851
views
Supplying ToPASeq a list of fold changes and their associated p-values
ToPASeq
updated 7.3 years ago by
theobroma22
▴ 10 • written 7.3 years ago by
rubi
▴ 110
1
vote
2
replies
1.3k
views
Normalized count or Count data for ToPASeq package
rnaseq
Topaseq
8.0 years ago
saamar.rajput
• 0
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Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
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: Dominance Index for Shotgun Metagenomics Data
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)
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