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microarrays
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7
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4
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3.2k
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Limma contrast for variables disease, gender and age
limma design matrix
limma
limma contrast matrix
microarrays
7.8 years ago
miyuki_iii
▴ 10
5
votes
6
replies
1.4k
views
Confusing: identify differentially expression genes (DEG) perturbed by a drug in Limma
limma
cmap
microarrays
differential gene expression
7.3 years ago
kevin.m.hao
▴ 10
4
votes
5
replies
2.1k
views
sample size determination in microarrays studies with limma analysis
limma
sample size
microarrays
statistical power
6.1 years ago
eleonoregravier
▴ 70
0
votes
0
replies
812
views
microarray data expression set
whole human genome microarray 4x44k
microarrays
7.2 years ago
farahqureshi5
• 0
0
votes
6
replies
2.7k
views
not able to install geoquery package
microarrays
xml
RCurl
libxml2
libcurl
updated 7.1 years ago by
Martin Morgan
25k • written 7.1 years ago by
farahqureshi5
• 0
5 results • Page
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Answer: ATACseq merge peaks
by
ATpoint
★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
camp
▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
ATpoint
★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123
by
Gordon Smyth
50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! I'll review my code from top to bottom.
Votes
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
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
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