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isoforms
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2
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2
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1.1k
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Confounding DE results with DESeq2
isoforms
DESeq2
3.2 years ago
arfranco
▴ 130
1
vote
9
replies
2.7k
views
Difference between gene-level test and transcript-level test with RATs (Relative Abundance of Transcrits)
RATs
RNA-Seq
Isoforms
DTU
expression
updated 5.9 years ago by
fruce_ki
▴ 20 • written 5.9 years ago by
UserAnonyme
• 0
0
votes
3
replies
1.9k
views
Downstream analysis for Salmon output: IsoformSwitchAnalyzeR or TSIS?
isoforms
diffrential expression
noncoding rna
TSIS
isoformswitchanalyzeR
7.0 years ago
rbenel
▴ 50
0
votes
0
replies
1.2k
views
Metadata sheet for DEXSeq analysis
dexseq
differential isoform usage
isoforms
summarizeoverlaps
granges
7.1 years ago
A
▴ 60
0
votes
0
replies
1.7k
views
cummeRbund heatmap for specific isoforms (not genes)
cummerbund
heatmap
isoforms
transcript_id
8.1 years ago
domenico.somma
• 0
5
votes
18
replies
4.1k
views
Incongruencies between DEXSeq and BitSeq/Cuffdiff
dexseq
bitseq
cuffdiff
Differential exon usage
isoforms
10.0 years ago • updated 9.9 years ago
elle
▴ 10
5
votes
3
replies
2.9k
views
edgeR: annotation and isoform analysis alternatives
edgeR
ruvseq
rnaseq
isoforms
10.0 years ago
sergio.espeso-gil
• 0
1
vote
2
replies
1.7k
views
DEXSeq transcripts per condition
DEXSeq
transcripts
isoforms
updated 10.0 years ago by
Alejandro Reyes
★ 1.9k • written 10.0 years ago by
peter_venhuizen
• 0
8 results • Page
1 of 1
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Replies
Comment: DiffBind - question on the use of filtered or unfiltered input data
by
sloperun3az
• 0
Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…
Comment: compute_fasta_digest does not match Salmon index hash
by
sloperun3az
• 0
The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …
Comment: parameters of filterByExpr
by
Paul Harrison
▴ 110
It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…
Comment: limma::voom vs edgeR::voomLmFit - when to use?
by
Gordon Smyth
52k
voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…
Comment: limma::voom vs edgeR::voomLmFit - when to use?
by
Geoff
• 0
Just wondering--why was this function put into `edgeR` rather than `limma`? Maybe a bit technical, but it is a little confusing from an out…
Votes
Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
A: what should I do with many zero counts from Salmon quantification
Comment: parameters of filterByExpr
GAlignments Cigar to GRanges
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