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Do the gene set statistics of the ROAST paper correspond to those implemented in the .roastEffects R function?
limma
roast
statistics
source code
gene set testing
6.3 years ago
Andrea Carenzo
• 0
0
votes
0
replies
1.1k
views
Error while extracting pseudo amino acid composition using protr
r
source code
error
6.5 years ago
shreyasarkar0
• 0
2
votes
4
replies
1.2k
views
package "isa2", function isa.iterate()
source code
isa.iterate()
updated 7.5 years ago by
Haiying.Kong
▴ 110 • written 7.5 years ago by
zhang.jianhai
▴ 10
4
votes
4
replies
1.8k
views
Where can I use the VSN source code in C++?
vsn
r language
C++
source code
updated 7.9 years ago by
Lluís Revilla Sancho
▴ 760 • written 7.9 years ago by
core_wzw
• 0
0
votes
1
reply
1.3k
views
get LCMS masses with more significant figures
source code
xcms
m/z
groupval
xcmsSet
updated 8.1 years ago by
Johannes Rainer
★ 2.1k • written 8.1 years ago by
juniormbarga
• 0
0
votes
3
replies
2.7k
views
Locating older version of Bioconductor packages
reproducibility
archive
source code
updated 9.2 years ago by
Dan Tenenbaum
★ 8.2k • written 9.2 years ago by
brucbruc
• 0
0
votes
2
replies
1.6k
views
Bioconductor source code - Errno::ECONNREFUSED in Codes#show
medips
bioconductor
error
source code
10.1 years ago
malbert1
• 0
7 results • Page
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Comment: Cross-validation with multiple control subgroups in limma
by
Ali Barry
▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
Answer: Cross-validation with multiple control subgroups in limma
by
Gordon Smyth
52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
by
Robert Castelo
★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS
by
Aidan
▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
by
Michael Love
43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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