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RNA-SEQ
•
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0
votes
1
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867
views
Human genes correlation to Bacterial genes
correlation
pearsoncorrelation
rna-seq
differential gene expression
updated 3 months ago by
ATpoint
★ 4.0k • written 5.9 years ago by
saad_k6
• 0
0
votes
2
replies
271
views
WGCNA less samples
RNA-Seq
WGCNA
Worms
4 months ago
davca
• 0
0
votes
4
replies
625
views
DESeq2 : standardising variation between treatments
RNA-seq
DESeq2
5 months ago
ar14g12
• 0
0
votes
2
replies
3.4k
views
Dealing with multi-overlapping and multi-mapping reads
RNA-seq
featureCounts
ht-seq
written 3.7 years ago by
ag1805x
▴ 80
2
votes
3
replies
1.3k
views
TPM from STAR mapped counts
GeneExpression
GenomicFeatures
RNA-Seq
TPM
updated 6 months ago by
Gordon Smyth
50k • written 6 months ago by
gingergeiger22
• 0
0
votes
3
replies
605
views
RNAseq (Deseq2 and Dexseq2) analysis on two time points with expected same effect
DEXSeq
RNA-seq
DESeq2
updated 7 months ago by
Alejandro Reyes
★ 1.9k • written 7 months ago by
Alice
• 0
0
votes
2
replies
2.1k
views
Incorporating spike-ins to rna-seq analysis
Spike-in
RNASeqR
DESeq2
Normalization
rna-seq
updated 7 months ago by
manuel.fernandez
• 0 • written 23 months ago by
cicely.day
• 0
3
votes
4
replies
801
views
lfcShrink() and batch effects in DESeq2
BatchEffect
lfcshrink
RNA-seq
DESeq2
7 months ago
Eva
▴ 10
0
votes
10
replies
2.1k
views
Error in reading data on isoformswitchanalyzeR
isoformswitchanalyzeR
rna-seq
splice-variants
written 5.0 years ago by
saddamhusain77
• 0
0
votes
3
replies
621
views
Fishpond with unbalanced dataset
rna-seq
salmon
fishpond
swish
updated 9 months ago by
Michael Love
41k • written 9 months ago by
samuelcjx
• 0
5
votes
7
replies
1.1k
views
Question about setting threshold using filtering by expression on genes in edgeR
filtering
RNA-Seq
CPM
edgeR
filterByExpr
updated 10 months ago by
Gordon Smyth
50k • written 10 months ago by
mohammedtoufiq91
▴ 10
0
votes
2
replies
1.2k
views
Pathway analysis using GAGE returns all NA values
gage
rna-seq
pathwayanalysis
updated 10 months ago by
Rob
• 0 • written 3.4 years ago by
microPhD
• 0
0
votes
3
replies
805
views
Why is RNA-Seq library size not constant among samples?
RNA-Seq
sequencer
library_size
sequency_depth
multiplexing
offtopic
updated 10 months ago by
James W. MacDonald
65k • written 10 months ago by
FedeXander
• 0
0
votes
3
replies
660
views
Is the gene-specific PCR efficiency a serious concern for intrasample comparisons in RNA-Seq?
RNA-Seq
normalization
PCR_efficiency
bias
intrasample_comparison
updated 10 months ago by
James W. MacDonald
65k • written 10 months ago by
FedeXander
• 0
1
vote
1
reply
1.2k
views
FPKM t-test vs DEseq2
DESeq2
statistics
rna-seq
updated 11 months ago by
ATpoint
★ 4.0k • written 11 months ago by
SH
• 0
15 results • Page
1 of 1
Recent ...
Replies
Comment: limma models out of memory issue on Slurm HPC
by
Jitendra
▴ 10
thanks Gordon, but our methylation epic array input file is quite big and we can't read it in R by just using laptop memory so we need to …
Comment: Doing comparison of RNA-seq data using EdgeR
by
Michael Love
41k
Just to clarify, when I originally posted the title and tags had listed "DESeq2" and then the post was changed after my answer was added. …
Comment: fgsea fork
by
shepherl
3.8k
Not quite sure what you mean by clone or fork the package on latest version of R. Bioconductor runs all builds on the latest version of R.…
Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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