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RNA Seq
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0
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9
replies
3.1k
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How to create manhattan plot with DESeq2
deseq2
mahattan plot
RNA Seq
updated 4.0 years ago by
bernatgel
▴ 150 • written 5.0 years ago by
adeler001
• 0
2
votes
5
replies
3.7k
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 4.5 years ago by
Steve Lianoglou
★ 13k • written 4.5 years ago by
svlachavas
▴ 830
0
votes
3
replies
858
views
Normalization of RNA seq data
RNA seq
cpm
updated 4.5 years ago by
Kevin Blighe
★ 4.0k • written 4.5 years ago by
isabel.pieterse
• 0
4
votes
4
replies
1.1k
views
Custom gene annotations for SGSeq
sgseq
alternative splicing
rna seq
updated 9 weeks ago by
Sara
• 0 • written 4.9 years ago by
116100016
• 0
1
vote
4
replies
1.0k
views
Difference between Fold Changes from EdgeR glmLRTest and directly calculated fold changes.
edger
RNA Seq
updated 4.9 years ago by
James W. MacDonald
67k • written 4.9 years ago by
abf
▴ 30
0
votes
0
replies
597
views
searching for specific RNA sequences
rna seq
4.9 years ago
adeler001
• 0
0
votes
2
replies
922
views
using only uniquely-mapping reads for alternative splicing using SGSeq
rna seq
SGSeq
Alternative splicing
updated 5.0 years ago by
Leonard Goldstein
▴ 260 • written 5.0 years ago by
116100016
• 0
0
votes
1
reply
639
views
51 views DESeq2 RNAseq differential expression analysis
deseq2
likelihood ratio
rna seq
wald test
updated 5.1 years ago by
Michael Love
42k • written 5.1 years ago by
adeler001
• 0
0
votes
2
replies
1.1k
views
Need help cprrecting overlappinge genes on valcano plot
volcano plot
rna seq
updated 5.1 years ago by
Michael Love
42k • written 5.1 years ago by
adeler001
• 0
1
vote
5
replies
1.4k
views
Time course experiment using limma with voom
limma
voom
RNA Seq
Time-course experiments
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
mahes.muniandy
• 0
5
votes
3
replies
1.2k
views
Steep dendrograms and few modules. WGCNA on RNA seq data
RNA seq
wgcna
updated 5.3 years ago by
Peter Langfelder
★ 3.0k • written 5.3 years ago by
agustin.gonvi
▴ 20
1
vote
2
replies
2.1k
views
adapter trimming paired vs unpaired reads
rna seq
trimmomatic
trimming
adapter trimming
paired analysis
5.4 years ago
Mozart
▴ 30
0
votes
0
replies
1.8k
views
Sub clustering from hierarchical cluster used to make heat map of gene expression data
heatmap.2
hierarchical clustering
microarray
RNA seq
DEG
6.6 years ago
lawarde.ankita1
▴ 30
13 results • Page
1 of 1
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Replies
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 20
Hi Maria, so what is the code you are using? By the 3rd way to conduct the analysis do you mean looking at the interaction model from part …
Comment: miRTarRnaseq library
by
María Calvo
• 0
Hello, in line with the previous questions, when the miRNA-mRNA interaction analysis is performed (3 rd way to conduct the analysis), I obt…
Answer: heatmap with batch effect
by
James W. MacDonald
67k
You have only one condition in the second batch, so it's not possible to remove the batch effect. You can probably adjust for it somewhat, …
Answer: how do I convert an Ilumn IDREF to a CPG loci
by
James W. MacDonald
67k
``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame with 865859 rows and 3 columns ch…
Answer: Which input data is acceptable for MAST?
by
Andrew_McDavid
▴ 270
Not too familiar with SCT v2. If it also has a point-mass at zero and the non-zero component is roughly-symmetric, then it might work ok w…
Votes
Answer: How to control batch effect if Group and batch are same?
Answer: How to control batch effect if Group and batch are same?
Answer: How to control batch effect if Group and batch are same?
Comment: Convert HGVS Representation back to Reference Genome Coordinates
Answer: How to control batch effect if Group and batch are same?
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