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stringtie
•
reset
2
votes
3
replies
1.5k
views
how to get the lastest version of tximport
tximport
stringtie
6.2 years ago • updated 6.0 years ago
matrs
▴ 10
2
votes
1
reply
1.8k
views
How to change stringtie gene_id names with ref_gene_id when performing featureCount
featureCount
rna-seq
gene_id
re_gene_id
stringtie
updated 5.3 years ago by
Wei Shi
★ 3.6k • written 5.3 years ago by
IRAIA.MAIALEN
• 0
2
votes
8
replies
5.8k
views
StringTie + Ballgown: handling biological replicates
ballgown
stringtie
updated 7.2 years ago by
linda.boshans
• 0 • written 8.2 years ago by
bhawley1991
▴ 10
1
vote
1
reply
1.4k
views
RNA-seq for DGE
stringtie
illumina
hisat2
ballgown
updated 6.5 years ago by
k.vitting.seerup
▴ 120 • written 6.5 years ago by
amy16
• 0
1
vote
3
replies
1.4k
views
Interaction term analysis using ballgown
ballgown
stringtie
voom limma
differential gene expression
rnaseq
updated 7.6 years ago by
Alyssa Frazee
▴ 210 • written 7.6 years ago by
jcalis
▴ 10
0
votes
1
reply
4.4k
views
Usage of prepDE.py with stringtie and deseq2
prepDE
STRINGTIE
deseq2
updated 5.6 years ago by
Michael Love
42k • written 5.6 years ago by
Nancy
▴ 10
0
votes
4
replies
1.4k
views
tximport and its version
tximport
stringtie
RNA-seq analysis
updated 5.5 years ago by
James W. MacDonald
65k • written 5.5 years ago by
Mithil Gaikwad
• 0
0
votes
3
replies
3.5k
views
Normalisation - Deseq2 vs StingTie-Ballgown
deseq2
StringTie
RNA-seq
normalisation
updated 4.4 years ago by
Michael Love
42k • written 4.4 years ago by
JindrichK
• 0
0
votes
3
replies
1.4k
views
StringTie output as Ballgown input
ballgown
StringTie
galaxy
rnaseq
updated 22 months ago by
Kevin Blighe
★ 3.9k • written 3.8 years ago by
lakshmi9c
• 0
0
votes
0
replies
1.3k
views
HISAT2/StringTie/Ballgown for Novel Transcript Isoform Differential Expression
isoform
RNA-seq
hisat2
stringtie
ballgown
3.6 years ago
ra711
• 0
0
votes
0
replies
285
views
help with converting MSTRG tags with isoformswictanalyzer
stringtie
IsoformSwitchAnalyzeR
pfamAnalyzeR
gtf
updated 5 months ago by
James W. MacDonald
65k • written 5 months ago by
sumitra.20
• 0
0
votes
1
reply
727
views
How to make the data compatible for DESeq2?
DESeq2
TPM
rawcounts
StringTie
updated 20 months ago by
Michael Love
42k • written 20 months ago by
snijesh
▴ 20
0
votes
4
replies
1.8k
views
Ballgown from StringTie results transcripts which are not expressed in both conditions as Differentially expressed ones
ballgown
stringtie
updated 7.8 years ago by
Jeff Leek
▴ 650 • written 7.8 years ago by
alva.james
• 0
0
votes
7
replies
2.5k
views
Handling both technical and biological replicates in Ballgown
ballgown
biologicalreplicates
technical replicates
stringtie
updated 6.4 years ago by
Alyssa Frazee
▴ 210 • written 7.2 years ago by
linda.boshans
• 0
0
votes
0
replies
1.8k
views
RNA-seq with hisat2+stringtie+ballgown
hisat2
stringtie
ballgown
RNAseq
6.2 years ago • updated 6.0 years ago
Nancy
▴ 10
0
votes
0
replies
1.4k
views
Ballgown data processing error
Ballgown
Stringtie
DEG
rnaseq
6.0 years ago
vharshavardhanan
• 0
16 results • Page
1 of 1
Recent ...
Replies
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
> Any suggestions for methylation data segmentation? I think the same segmentation can be used.
Comment: deseq2 results
by
swbarnes2
★ 1.3k
Cross-posted https://www.biostars.org/p/9594331/#9594458
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Mike Smith
★ 6.5k
The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…
Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Nudging my question. I could do with confirmation before proceeding with my current projects. Thank you.
Comment: Extremely small p-values using Limma for proteomic data
by
Robert Castelo
★ 3.3k
From the point of view of visualization, I find handy the fact that raw p-values give more resolution than adjusted ones, which allows one …
Votes
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
Awards
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Teacher
to
Michael Love
42k
Popular Question
to
Haibo Liu
• 0
Popular Question
to
HS
▴ 10
Popular Question
to
DevelopingHippo
• 0
Scholar
to
Robert Castelo
★ 3.3k
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