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Showing :
maplot
•
reset
10
votes
8
replies
2.0k
views
MA plot
MAplot
14 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
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
★ 5.1k • written 4.9 years ago by
melnuesch
▴ 10
2
votes
4
replies
1.6k
views
DiffBind MA plot
diffbind
maplot
updated 6.2 years ago by
Rory Stark
★ 5.1k • written 6.2 years ago by
grundelphine
• 0
2
votes
1
reply
2.0k
views
Error in DESeq2 plotMA from object subset
deseq2
maplot
subset
updated 6.2 years ago by
Michael Love
41k • written 6.2 years ago by
rbronste
▴ 60
1
vote
1
reply
767
views
LFCshrink function understanding
deseq2
MAplot
lfcshrink
updated 3.6 years ago by
Michael Love
41k • written 3.6 years ago by
evelas13
• 0
1
vote
2
replies
583
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
1
vote
2
replies
1.2k
views
DiffBind DESeq2 MA plot skewed
diffbind
deseq2
maplot
updated 6.5 years ago by
Rory Stark
★ 5.1k • written 6.5 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
0
votes
3
replies
2.7k
views
DESeq2 MA plot look different
deseq2
maplot
updated 6.5 years ago by
Michael Love
41k • written 6.5 years ago by
jshouse
▴ 10
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
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
0
votes
2
replies
1.3k
views
MA plot scattering pattern
deseq2
MAplot
5.4 years ago
avitalwasser
• 0
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
938
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
16 results • Page
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Answer: OrgDb for maize
by
James W. MacDonald
65k
``` > library(AnnotationHub) > hub <- AnnotationHub() |===========================| 100% snapshotDate(): 2023-10-23 > query(hu…
Comment: Which input file is used for DGEList in EgdeR?
by
i.atanasoai
• 0
Understood, Thank you very much for the reply, very kind.
Comment: Which input file is used for DGEList in EgdeR?
by
Michael Love
41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Michael Love
41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts
by
Michael Love
41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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