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rna seq
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9
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2.6k
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How to create manhattan plot with DESeq2
deseq2
mahattan plot
RNA Seq
updated 3.5 years ago by
bernatgel
▴ 150 • written 4.5 years ago by
adeler001
• 0
2
votes
5
replies
3.2k
views
Possible batch effect correction with RNA-Seq data when the batches do not contain both biological conditions for DE analysis
batch effect
limma
rna seq
DE
updated 4.0 years ago by
Steve Lianoglou
★ 13k • written 4.0 years ago by
svlachavas
▴ 830
0
votes
3
replies
647
views
Normalization of RNA seq data
RNA seq
cpm
updated 4.1 years ago by
Kevin Blighe
★ 3.9k • written 4.1 years ago by
isabel.pieterse
• 0
3
votes
3
replies
877
views
Custom gene annotations for SGSeq
sgseq
alternative splicing
rna seq
updated 4.4 years ago by
Leonard Goldstein
▴ 200 • written 4.4 years ago by
116100016
• 0
1
vote
4
replies
890
views
Difference between Fold Changes from EdgeR glmLRTest and directly calculated fold changes.
edger
RNA Seq
updated 4.4 years ago by
James W. MacDonald
65k • written 4.4 years ago by
abf
▴ 30
0
votes
0
replies
493
views
searching for specific RNA sequences
rna seq
4.4 years ago
adeler001
• 0
0
votes
2
replies
774
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq
SGSeq
Alternative splicing
updated 4.5 years ago by
Leonard Goldstein
▴ 200 • written 4.5 years ago by
116100016
• 0
0
votes
1
reply
548
views
51 views DESeq2 RNAseq differential expression analysis
deseq2
likelihood ratio
rna seq
wald test
updated 4.6 years ago by
Michael Love
41k • written 4.6 years ago by
adeler001
• 0
0
votes
2
replies
943
views
Need help cprrecting overlappinge genes on valcano plot
volcano plot
rna seq
updated 4.7 years ago by
Michael Love
41k • written 4.7 years ago by
adeler001
• 0
1
vote
5
replies
1.3k
views
Time course experiment using limma with voom
limma
voom
RNA Seq
Time-course experiments
updated 4.9 years ago by
Aaron Lun
★ 28k • written 4.9 years ago by
mahes.muniandy
• 0
5
votes
3
replies
958
views
Steep dendrograms and few modules. WGCNA on RNA seq data
RNA seq
wgcna
updated 4.9 years ago by
Peter Langfelder
★ 3.0k • written 4.9 years ago by
agustin.gonvi
▴ 20
1
vote
2
replies
1.9k
views
adapter trimming paired vs unpaired reads
rna seq
trimmomatic
trimming
adapter trimming
paired analysis
5.0 years ago
Mozart
▴ 30
0
votes
0
replies
1.6k
views
Sub clustering from hierarchical cluster used to make heat map of gene expression data
heatmap.2
hierarchical clustering
microarray
RNA seq
DEG
6.2 years ago
lawarde.ankita1
▴ 30
13 results • Page
1 of 1
Recent ...
Replies
Comment: Help with error using camera() in limma
by
Chris
• 0
Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.
Comment: limma for gene expression analysis with big and unbalanced sample size
by
XW
• 0
Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.
Comment: Limma, eBayes different sample size of groups and adjustment
by
XW
• 0
Could you explain more about how the analysis self-correct the different sample sizes when calling DEGs in limma? Thanks
Answer: How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
by
James W. MacDonald
65k
The section of the vignette that is *directly above the one you quote* says that you can use the HMMcopy utils to do all three things. And …
Comment: Help with error using camera() in limma
by
James W. MacDonald
65k
Again, this is where you need to read the help page and try to diagnose. It says ``` index: an index vector or a list of index vectors. …
Votes
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
Comment: Help with error using camera() in limma
Answer: Help with error using camera() in limma
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