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RNA Seq
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0
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9
replies
2.9k
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How to create manhattan plot with DESeq2
deseq2
mahattan plot
RNA Seq
updated 3.8 years ago by
bernatgel
▴ 150 • written 4.8 years ago by
adeler001
• 0
2
votes
5
replies
3.5k
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 4.3 years ago by
Steve Lianoglou
★ 13k • written 4.3 years ago by
svlachavas
▴ 830
0
votes
3
replies
733
views
Normalization of RNA seq data
RNA seq
cpm
updated 4.3 years ago by
Kevin Blighe
★ 4.0k • written 4.3 years ago by
isabel.pieterse
• 0
4
votes
3
replies
975
views
Custom gene annotations for SGSeq
sgseq
alternative splicing
rna seq
updated 4.7 years ago by
Leonard Goldstein
▴ 260 • written 4.7 years ago by
116100016
• 0
1
vote
4
replies
961
views
Difference between Fold Changes from EdgeR glmLRTest and directly calculated fold changes.
edger
RNA Seq
updated 4.7 years ago by
James W. MacDonald
66k • written 4.7 years ago by
abf
▴ 30
0
votes
0
replies
535
views
searching for specific RNA sequences
rna seq
4.7 years ago
adeler001
• 0
0
votes
2
replies
860
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq
SGSeq
Alternative splicing
updated 4.8 years ago by
Leonard Goldstein
▴ 260 • written 4.8 years ago by
116100016
• 0
0
votes
1
reply
586
views
51 views DESeq2 RNAseq differential expression analysis
deseq2
likelihood ratio
rna seq
wald test
updated 4.9 years ago by
Michael Love
42k • written 4.9 years ago by
adeler001
• 0
0
votes
2
replies
1.0k
views
Need help cprrecting overlappinge genes on valcano plot
volcano plot
rna seq
updated 4.9 years ago by
Michael Love
42k • written 4.9 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 5.1 years ago by
Aaron Lun
★ 28k • written 5.1 years ago by
mahes.muniandy
• 0
5
votes
3
replies
1.1k
views
Steep dendrograms and few modules. WGCNA on RNA seq data
RNA seq
wgcna
updated 5.2 years ago by
Peter Langfelder
★ 3.0k • written 5.2 years ago by
agustin.gonvi
▴ 20
1
vote
2
replies
2.0k
views
adapter trimming paired vs unpaired reads
rna seq
trimmomatic
trimming
adapter trimming
paired analysis
5.2 years ago
Mozart
▴ 30
0
votes
0
replies
1.7k
views
Sub clustering from hierarchical cluster used to make heat map of gene expression data
heatmap.2
hierarchical clustering
microarray
RNA seq
DEG
6.4 years ago
lawarde.ankita1
▴ 30
13 results • Page
1 of 1
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Replies
Comment: 'path' must be string
by
James W. MacDonald
66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string
by
cpierce2
• 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest
by
Robert
• 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta
by
Guido Hooiveld
★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta
by
Michael Love
42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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Lluís Revilla Sancho
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maltethodberg
▴ 180
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Michael Love
42k
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Leonardo Collado Torres
★ 1.1k
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Gordon Smyth
51k
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