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rnaseq123
•
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12
votes
4
replies
4.5k
views
differential expression analysis of htseq data with edgeR/voom
voom
htseq
edgeR
limma
RNASeq123
updated 5.4 years ago by
Gordon Smyth
50k • written 7.0 years ago by
wd
▴ 30
5
votes
6
replies
2.5k
views
Large difference in PCA plot based on LCPM (log counts per million) and VST (variance stabilizing transformations)
PCAtools
edgeR
pcaExplorer
RNASeq
RNAseq123
2.1 years ago
Alan
• 0
2
votes
1
reply
1.0k
views
Error in RNAseq123 analysis, unexpected symbol.
RNAseq123
Rna
updated 23 months ago by
Gordon Smyth
50k • written 23 months ago by
Mikołaj Mierzejewski
• 0
2
votes
5
replies
1.0k
views
Can we massively improve RNA-Seq results by slightly reducing the counts in it?
edgeR
RNAseq123
updated 17 months ago by
Gordon Smyth
50k • written 18 months ago by
Istvan Albert
▴ 50
1
vote
1
reply
355
views
Differential gene expression analysis
RNASeqData
RNAseq123
updated 5 months ago by
ATpoint
★ 4.1k • written 5 months ago by
kaurprab
• 0
1
vote
3
replies
4.5k
views
Using TMM normalized counts in Deseq2
RNAseq123
written 3.4 years ago by
mmicky5050
• 0
1
vote
1
reply
1.4k
views
featureCounts running too long
RNAseq123
updated 3 months ago by
difraiadomenico
• 0 • written 3.2 years ago by
demirkalecy
▴ 10
1
vote
6
replies
3.3k
views
KEGG enrichment analysis for non model organism
RNAseq123
17 months ago
afsanarupa1
• 0
1
vote
1
reply
732
views
Confused about design for RNA seq experiment
RNAseq
ExperimentData
RNAseq123
RNA
ExperimentalDesign
updated 20 months ago by
ATpoint
★ 4.1k • written 20 months ago by
Mohamed
▴ 30
1
vote
2
replies
218
views
Improving the design matrices vignette in RNAseq123
RNAseq123
29 days ago • updated 15 days ago
Lluís Revilla Sancho
▴ 730
0
votes
2
replies
562
views
Deseq2 paird analysis in a cohort mixed of paired and unpaired samples
DESeq2
RNAseq123
15 months ago
fatemeh.peimani
• 0
0
votes
0
replies
520
views
Circular RNA
CircularRNA
RNASeq
RNAseq123
3.3 years ago
rpokhre2
• 0
0
votes
1
reply
825
views
python and R
snpeff
python
tophat
r
RNAseq123
updated 2.8 years ago by
Kevin Blighe
★ 3.9k • written 2.8 years ago by
kusum
• 0
0
votes
3
replies
875
views
DESeq2 Statistic - Padj NA
DESeq2
RNAseq123
rnaseq
deseq2
metatranscriptomic
updated 17 months ago by
Michael Love
42k • written 17 months ago by
irish.prg
• 0
0
votes
0
replies
567
views
Plotting a line plot for genes across 4-species
RNAseq123
22 months ago
Mohamed
▴ 30
0
votes
1
reply
1.5k
views
Confused about understanding the output and statistics of BAM file after STAR aligning
RNAseq123
VariantFiltering
Alignment
VariantAnnotation
updated 18 months ago by
James W. MacDonald
66k • written 18 months ago by
Mohamed
▴ 30
16 results • Page
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Answer: recount3 problem downloading data from source sra
by
Leonardo Collado Torres
★ 1.0k
Hi, I wasn't able to reproduce the issue on both bioc 3.19 (current release version) and 3.18 (closer to your session info). My guess is…
Answer: Running ENmix with mouse methylation manifest: readidat error - Error in readman
by
minardsmitha
▴ 10
Well it turns out there is a typo in the manifest file name. This particular issue is resolved by correcting the typo. A new error now …
Answer: Documenting resources in an `ExperimentHub` package?
by
James W. MacDonald
66k
The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, bu…
Comment: ChAMP installation issue
by
shepherl
3.9k
We are still waiting for the goseq to respond to our requests but will take action next week if it is not resolved. ChAMP is currently una…
Comment: How to arrange multiple plots into one page in NOISeq?
by
baptiste.bidon
• 0
After facing the same problem, I realise that you can direct your plot in the matrix with the *par()* option `par(..., mfg = c(1,2))`. If i…
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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