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rna seq
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9
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2.1k
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How to create manhattan plot with DESeq2
deseq2
mahattan plot
RNA Seq
updated 3.0 years ago by
bernatgel
▴ 150 • written 4.0 years ago by
adeler001
• 0
2
votes
5
replies
2.6k
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 3.5 years ago by
Steve Lianoglou
13k • written 3.5 years ago by
svlachavas
▴ 810
0
votes
3
replies
500
views
Normalization of RNA seq data
RNA seq
cpm
updated 3.5 years ago by
Kevin Blighe
3.8k • written 3.5 years ago by
isabel.pieterse
• 0
3
votes
3
replies
648
views
Custom gene annotations for SGSeq
sgseq
alternative splicing
rna seq
updated 3.9 years ago by
Leonard Goldstein
▴ 150 • written 3.9 years ago by
116100016
• 0
1
vote
4
replies
685
views
Difference between Fold Changes from EdgeR glmLRTest and directly calculated fold changes.
edger
RNA Seq
updated 3.9 years ago by
James W. MacDonald
63k • written 3.9 years ago by
abf
▴ 30
0
votes
0
replies
366
views
searching for specific RNA sequences
rna seq
3.9 years ago
adeler001
• 0
0
votes
2
replies
586
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq
SGSeq
Alternative splicing
updated 4.0 years ago by
Leonard Goldstein
▴ 150 • written 4.0 years ago by
116100016
• 0
0
votes
1
reply
453
views
51 views DESeq2 RNAseq differential expression analysis
deseq2
likelihood ratio
rna seq
wald test
updated 4.0 years ago by
Michael Love
40k • written 4.0 years ago by
adeler001
• 0
0
votes
2
replies
742
views
Need help cprrecting overlappinge genes on valcano plot
volcano plot
rna seq
updated 4.1 years ago by
Michael Love
40k • written 4.1 years ago by
adeler001
• 0
1
vote
5
replies
1000
views
Time course experiment using limma with voom
limma
voom
RNA Seq
Time-course experiments
updated 4.3 years ago by
Aaron Lun
★ 28k • written 4.3 years ago by
mahes.muniandy
• 0
5
votes
3
replies
757
views
Steep dendrograms and few modules. WGCNA on RNA seq data
RNA seq
wgcna
updated 4.3 years ago by
Peter Langfelder
★ 2.8k • written 4.3 years ago by
agustin.gonvi
▴ 20
1
vote
2
replies
1.7k
views
adapter trimming paired vs unpaired reads
rna seq
trimmomatic
trimming
adapter trimming
paired analysis
4.4 years ago
Mozart
▴ 30
0
votes
0
replies
1.4k
views
Sub clustering from hierarchical cluster used to make heat map of gene expression data
heatmap.2
hierarchical clustering
microarray
RNA seq
DEG
5.6 years ago
lawarde.ankita1
▴ 30
13 results • Page
1 of 1
Recent ...
Replies
Comment: tximport error: vroom
by
RLiu
▴ 10
Thank you for providing this clue. I never installed vroom manually. I guess it is one of dependences for tximport that automatically insta…
Comment: tximport error: vroom
by
RLiu
▴ 10
I checked that all `quant.sf`s have the same line number (42013 lines in each file), which is different from tx2gene (81493 lines).
Comment: tximport error: vroom
by
Benji Bromberg
• 0
I also ran into this same issue today. All my quant.sf files are the same length, were generated within the last month, [do not contain com…
Answer: DiffBind returns different grey lists every time I run dba.blacklist even if I s
by
James W. MacDonald
63k
Using `.set.seed` only sets the seed for the first call to any random number generation, after which the seed is incremented. As an example…
Comment: Point mutation to corresponding amino acid
by
jtremblay514
• 0
You can have a look at the transvar software for this. While not in bioconductor, it works well.
Votes
tximport error: vroom
Comment: Speeding up of DelayedArray::write_block()
Comment: Speeding up of DelayedArray::write_block()
Unclear of calculating correlations with case+control samples together
Answer: Error MakeOrgPackagefromNCBI
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