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rnaseq123
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1
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314
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Differential gene expression analysis
RNASeqData
RNAseq123
updated 4 months ago by
ATpoint
★ 4.0k • written 4 months ago by
kaurprab
• 0
0
votes
2
replies
521
views
Deseq2 paird analysis in a cohort mixed of paired and unpaired samples
DESeq2
RNAseq123
14 months ago
fatemeh.peimani
• 0
0
votes
3
replies
793
views
DESeq2 Statistic - Padj NA
DESeq2
RNAseq123
rnaseq
deseq2
metatranscriptomic
updated 16 months ago by
Michael Love
41k • written 16 months ago by
irish.prg
• 0
1
vote
6
replies
3.1k
views
KEGG enrichment analysis for non model organism
RNAseq123
16 months ago
afsanarupa1
• 0
2
votes
5
replies
998
views
Can we massively improve RNA-Seq results by slightly reducing the counts in it?
edgeR
RNAseq123
updated 16 months ago by
Gordon Smyth
50k • written 17 months ago by
Istvan Albert
▴ 50
0
votes
1
reply
1.4k
views
Confused about understanding the output and statistics of BAM file after STAR aligning
RNAseq123
VariantFiltering
Alignment
VariantAnnotation
updated 17 months ago by
James W. MacDonald
65k • written 17 months ago by
Mohamed
▴ 30
1
vote
1
reply
689
views
Confused about design for RNA seq experiment
RNAseq
ExperimentData
RNAseq123
RNA
ExperimentalDesign
updated 19 months ago by
ATpoint
★ 4.0k • written 19 months ago by
Mohamed
▴ 30
0
votes
0
replies
542
views
Plotting a line plot for genes across 4-species
RNAseq123
21 months ago
Mohamed
▴ 30
2
votes
1
reply
998
views
Error in RNAseq123 analysis, unexpected symbol.
RNAseq123
Rna
updated 22 months ago by
Gordon Smyth
50k • written 22 months ago by
Mikołaj Mierzejewski
• 0
5
votes
6
replies
2.4k
views
Large difference in PCA plot based on LCPM (log counts per million) and VST (variance stabilizing transformations)
PCAtools
edgeR
pcaExplorer
RNASeq
RNAseq123
2.0 years ago
Alan
• 0
0
votes
1
reply
804
views
python and R
snpeff
python
tophat
r
RNAseq123
updated 2.7 years ago by
Kevin Blighe
★ 3.9k • written 2.7 years ago by
kusum
• 0
1
vote
1
reply
1.3k
views
featureCounts running too long
RNAseq123
updated 10 weeks ago by
difraiadomenico
• 0 • written 3.1 years ago by
demirkalecy
▴ 10
0
votes
0
replies
498
views
Circular RNA
CircularRNA
RNASeq
RNAseq123
3.2 years ago
rpokhre2
• 0
1
vote
3
replies
4.3k
views
Using TMM normalized counts in Deseq2
RNAseq123
written 3.3 years ago by
mmicky5050
• 0
12
votes
4
replies
4.4k
views
differential expression analysis of htseq data with edgeR/voom
voom
htseq
edgeR
limma
RNASeq123
updated 5.3 years ago by
Gordon Smyth
50k • written 6.9 years ago by
wd
▴ 30
15 results • Page
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Replies
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Robert Castelo
★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq
by
lonn
• 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph
by
deeenes
▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches
by
Gordon Smyth
50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
russ.bainer
▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
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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Robert Castelo
★ 3.2k
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James W. MacDonald
65k
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shepherl
3.8k
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BioinfGuru
▴ 30
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Gordon Smyth
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