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maplot
•
reset
10
votes
8
replies
2.1k
views
MA plot
MAplot
15 months ago
Nathalie
▴ 20
5
votes
8
replies
1.2k
views
High normalized counts on DESeq2 MAplot
deseq2
maplot
updated 5.4 years ago by
James W. MacDonald
65k • written 5.4 years ago by
rbronste
▴ 60
3
votes
6
replies
1.8k
views
Clarification MAplot and FDR in EdgeR
edgeR
MAplot
rnaseq
differential gene expression
updated 7.7 years ago by
Gordon Smyth
50k • written 7.7 years ago by
joseph.bergenstrahle
• 0
0
votes
4
replies
1.1k
views
DESeq2 MA plot normalisation Issue
deseq2
normalization
maplot
rnaseq
updated 5.5 years ago by
Michael Love
41k • written 5.5 years ago by
ma619
• 0
2
votes
4
replies
1.6k
views
DiffBind MA plot
diffbind
maplot
updated 6.3 years ago by
Rory Stark
★ 5.2k • written 6.3 years ago by
grundelphine
• 0
0
votes
3
replies
2.7k
views
DESeq2 MA plot look different
deseq2
maplot
updated 6.6 years ago by
Michael Love
41k • written 6.6 years ago by
jshouse
▴ 10
0
votes
3
replies
2.2k
views
Understanding MA plot distortion
DESeq2
MAplot
deseq
updated 3.1 years ago by
Michael Love
41k • written 3.1 years ago by
sp
• 0
0
votes
2
replies
1.3k
views
MA plot scattering pattern
deseq2
MAplot
5.4 years ago
avitalwasser
• 0
1
vote
2
replies
1.2k
views
DiffBind DESeq2 MA plot skewed
diffbind
deseq2
maplot
updated 6.6 years ago by
Rory Stark
★ 5.2k • written 6.6 years ago by
rbronste
▴ 60
2
votes
2
replies
2.5k
views
DiffBind's MA plots for ChIP-seq - how to properly interpret normalization from them?
diffbind
R
MAplot
Chipseq
updated 4.9 years ago by
Rory Stark
★ 5.2k • written 4.9 years ago by
melnuesch
▴ 10
1
vote
2
replies
586
views
Label points on DESeq2 MA plot with interval list
deseq2
maplot
annotation
updated 4.4 years ago by
Michael Love
41k • written 4.4 years ago by
rbronste
▴ 60
0
votes
2
replies
946
views
Why is my log fold change not centered around 0 and lower?
DESeq2
MAplot
updated 14 months ago by
ATpoint
★ 4.0k • written 14 months ago by
Michael
• 0
1
vote
1
reply
770
views
LFCshrink function understanding
deseq2
MAplot
lfcshrink
updated 3.6 years ago by
Michael Love
41k • written 3.6 years ago by
evelas13
• 0
0
votes
1
reply
1.5k
views
MA plot interpretation .
MAPLOT
DESEQ2
RNASEQ
updated 6.2 years ago by
Michael Love
41k • written 6.2 years ago by
phurbusang
• 0
2
votes
1
reply
2.0k
views
Error in DESeq2 plotMA from object subset
deseq2
maplot
subset
updated 6.3 years ago by
Michael Love
41k • written 6.3 years ago by
rbronste
▴ 60
0
votes
0
replies
1.2k
views
error while running MAplot
MAplot
rnaseq
cummerbund
8.0 years ago
kritikamish99
▴ 10
16 results • Page
1 of 1
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Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
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