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RnaSeq
•
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0
votes
0
replies
1.2k
views
RNA Seq // QuasR : Error while extracting unmapped reads
quasr
quasr error
paired-end reads
rnaseq
8.9 years ago
guillaume.dachy
• 0
0
votes
1
reply
1.6k
views
meta analysis of clc output(differential expression data )
rnaseq
metaseq
clc output
pvalue
meta analysis
updated 8.9 years ago by
Koki
▴ 10 • written 8.9 years ago by
hassangiahi
• 0
0
votes
1
reply
1.4k
views
meta analysis of p value data by metaseq package
rnaseq
meta-analysis
p values
8.9 years ago
hassangiahi
• 0
0
votes
0
replies
1.4k
views
Error in qAlign, QuasR, in paired-end RNA Seq
quasr
paired-end reads
rnaseq
8.9 years ago
guillaume.dachy
• 0
3
votes
3
replies
2.5k
views
getBM function, search for annotation characteristics with entrezgene filters --> result with duplicates
getBM
entrez gene identifiers
duplicate
rnaseq
8.9 years ago
Jose Luis Soto Vázquez
• 0
3
votes
4
replies
4.1k
views
Simultaneously adding two different covariates in the model gives error in DESeq2.
deseq2
dexseq
rnaseq
differential gene expression
differential exon usage
updated 8.9 years ago by
Michael Love
43k • written 8.9 years ago by
fizer
▴ 40
0
votes
0
replies
1.0k
views
OmicCircos for non human genomes
omiccircos
rnaseq
plants
8.9 years ago
Didi
▴ 10
0
votes
1
reply
1.6k
views
featureCounts on read 1 of a paired-end experiment
rnaseq
updated 8.9 years ago by
Aaron Lun
★ 29k • written 8.9 years ago by
RRnaSeq
• 0
4
votes
1
reply
5.4k
views
Rsubread featureCounts with strand information
Rsubread
bam
rnaseq
updated 8.9 years ago by
Aaron Lun
★ 29k • written 8.9 years ago by
rubi
▴ 110
0
votes
0
replies
1.2k
views
Error preprocessReads : Error in writeFastq
quasr
rnaseq
paired-end reads
8.9 years ago
guillaume.dachy
• 0
0
votes
2
replies
1.6k
views
Error when using EnrichmentBrowser's sbea function with RNA-seq data
EnrichmentBrowser
rnaseq
8.9 years ago
aichen620
• 0
1
vote
1
reply
1.4k
views
RNA-seq: EdgeR's togtags table not correlating to htseq-count's CPM values
edger
htseqcounts
rnaseq
updated 8.9 years ago by
Aaron Lun
★ 29k • written 8.9 years ago by
romsdahl
• 0
2
votes
3
replies
4.6k
views
voom on normalised counts
limma voom
rnaseq
updated 8.9 years ago by
Aaron Lun
★ 29k • written 8.9 years ago by
i.sudbery
▴ 40
2
votes
3
replies
2.3k
views
DESeq2 log-fold change shrunk to -0.4 instead of zero. Why?
deseq2
rnaseq
8.9 years ago
lostisle
• 0
0
votes
1
reply
1.8k
views
JunctionSeq/DEXSeq: Dispersion plot looks strange (but is fine in DESeq2)
deseq2
junctionseq
dexseq
estimatedispersions
rnaseq
updated 8.9 years ago by
Steve Lianoglou
★ 13k • written 8.9 years ago by
l.frank
• 0
1
vote
3
replies
4.5k
views
DESeq2 analysis for RNAseq data at different time points and different conditions
deseq2
timecourse
rnaseq
updated 2.6 years ago by
DHARMESH
• 0 • written 8.9 years ago by
chudar.chudar
▴ 30
0
votes
0
replies
801
views
MLSeq package output
rnaseq
8.9 years ago
jonessara770
▴ 10
4
votes
4
replies
2.1k
views
How to isolate gene from a single chromosome, RNA Seq experiment, using R package ?
rnaseq
r
cummerbund
updated 9.0 years ago by
Gordon Smyth
53k • written 9.0 years ago by
guillaume.dachy
• 0
4
votes
5
replies
8.3k
views
outlier detection of RNAseq samples
deseq2
rnaseq
PCA
hierarchical clustering
outlier
9.0 years ago
wd
▴ 30
0
votes
3
replies
2.5k
views
Error in ball gown command
rnaseq
ballgown
differential gene expression
updated 9.0 years ago by
Jeff Leek
▴ 650 • written 9.0 years ago by
kritikamish99
▴ 10
2
votes
2
replies
1.5k
views
RNA-seq analysis without replicates using tximport and DESeq2
rnaseq
deseq2
tximport
updated 9.0 years ago by
Michael Love
43k • written 9.0 years ago by
Endre Sebestyén
▴ 70
1
vote
1
reply
1.6k
views
Raw read count Vs EdgeR normzlized read count for RUVg normalization
rnaseq
ruvseq
normalization
updated 9.0 years ago by
davide risso
▴ 980 • written 9.0 years ago by
Venu Pullabhatla
▴ 40
0
votes
2
replies
1.3k
views
can a batch effect be determined in edgeR with only 2 reps?
edger
rnaseq
batch effect
read length
9.0 years ago
Spollen, William G.
▴ 30
2
votes
3
replies
2.0k
views
Deseq2 time series question,
rnaseq
deseq2
timecourse
updated 9.0 years ago by
Michael Love
43k • written 9.0 years ago by
cannedcanary
• 0
0
votes
1
reply
2.1k
views
edgeR estimateGLMRobustDisp fails with and error
rnaseq
edger
updated 9.0 years ago by
Aaron Lun
★ 29k • written 9.0 years ago by
Robert Ivanek
▴ 750
0
votes
1
reply
838
views
DESeq2 Nested Comparison
deseq2
rnaseq
updated 9.0 years ago by
Michael Love
43k • written 9.0 years ago by
saywhoa
• 0
2
votes
3
replies
2.7k
views
SystemPipeR: alignments with ambiguous pairing were dumped.
R
rnaseq
tophat
summarizeoverlaps
systempiper
updated 9.0 years ago by
Thomas Girke
★ 1.7k • written 9.0 years ago by
abass.conteh
• 0
5
votes
2
replies
2.3k
views
DESeq2 design matrix for timecourse
deseq2
experimental design
timecourse
rnaseq
model
updated 9.1 years ago by
Michael Love
43k • written 9.1 years ago by
athief
▴ 20
0
votes
6
replies
1.8k
views
Using tximport to read in data from sailfish experiment
tximport
sailfish
rnaseq
updated 9.1 years ago by
Michael Love
43k • written 9.1 years ago by
lina.faller
▴ 10
0
votes
0
replies
1.4k
views
Figuring out what long decent Phred value unaligned reads are
rnaseq
alignment
9.1 years ago
Matthew Thornton
▴ 390
1
vote
2
replies
1.4k
views
2-Factor Experiment in edgeR, Effect of no reps in one set and two reps in others
rnaseq
edger
differential expression
dispersion
updated 9.1 years ago by
Ryan C. Thompson
★ 7.9k • written 9.1 years ago by
nancyjwahl7
• 0
3
votes
5
replies
1.7k
views
i need to have a package for reads alignment to reference genome
rnaseq
updated 9.1 years ago by
Hotz, Hans-Rudolf
▴ 400 • written 9.1 years ago by
hassangiahi
• 0
6
votes
4
replies
2.0k
views
Combining newer/older RNAseq data, batch correcting
rnaseq
limma
sva
batch effect
voom
updated 9.1 years ago by
Aaron Lun
★ 29k • written 9.1 years ago by
schrist1
▴ 10
0
votes
2
replies
2.2k
views
I'm worried that I can't use "ballgown" well
ballgown
rnaseq
updated 9.1 years ago by
James W. MacDonald
68k • written 9.1 years ago by
noset2769
• 0
5
votes
2
replies
8.5k
views
ComBat to remove batch effects from RNA Seq data
combat
rnaseq
updated 9.1 years ago by
polemiraza
▴ 70 • written 9.1 years ago by
kerrypop
▴ 30
2
votes
2
replies
1.5k
views
rlog transformation for Time-course data
deseq2
rlog transformation
timecourse
rnaseq
updated 9.1 years ago by
Michael Love
43k • written 9.1 years ago by
veigh09
• 0
27
votes
7
replies
17k
views
Usability of ERCC spike-ins in standard RNAseq experiments
RNAseq
deseq2
ercc
updated 9.1 years ago by
Simon Anders
★ 3.8k • written 9.1 years ago by
mbeckste
▴ 30
3
votes
3
replies
1.5k
views
EdgeR design and contrasts questions
rnaseq
edger
design and contrast matrix
9.1 years ago
jjh
• 0
0
votes
1
reply
1.2k
views
Meta-analysis on rna-seq data without replicates
meta-analysis
rnaseq
metarnaseq
updated 9.1 years ago by
Michael Love
43k • written 9.1 years ago by
bioinformatics
▴ 30
1
vote
10
replies
2.9k
views
edgeR: AveLogCPM after estimateGLMCommonDisp
rnaseq
edger
updated 9.1 years ago by
Gordon Smyth
53k • written 9.1 years ago by
David R
▴ 90
0
votes
2
replies
2.0k
views
DESeq2 Model matrix design: Merging large RNAseq projects
deseq2
model.matrix
batch effect
rnaseq
9.1 years ago
arom2
• 0
5
votes
6
replies
7.4k
views
How featureCounts define the gene length
featurecounts
rnaseq
rsubread
updated 3.9 years ago by
Gordon Smyth
53k • written 9.1 years ago by
Yiwei Niu
▴ 20
0
votes
3
replies
2.3k
views
Unable to get soft threshold power using WGCNA for RNA-seq data
rnaseq
wgcna
picksoftthreshold
updated 9.1 years ago by
Lluís Revilla Sancho
▴ 760 • written 9.1 years ago by
divara01
• 0
0
votes
1
reply
2.6k
views
Merging files with gene expression data
merge
rnaseq
files
updated 9.1 years ago by
jayme.rickman
• 0 • written 9.1 years ago by
BioinfGuru
▴ 70
3
votes
7
replies
1.9k
views
Weird results (ribosomal proteins / Y-linked genes) in limma/voom
limma
voom
rnaseq
updated 9.1 years ago by
Gordon Smyth
53k • written 9.1 years ago by
blofeld
▴ 10
1
vote
5
replies
1.5k
views
How to analyze unannotated lncRNA using RNA-seq data?
rnaseq
9.1 years ago
xiaoyonf
• 0
19
votes
6
replies
48k
views
How to map all Ensembl IDs to Gene Symbols- Problem with AnootationDbi
rnaseq
annotationdbi
updated 9.1 years ago by
Valerie Obenchain
★ 6.8k • written 9.2 years ago by
gokce.ouz
▴ 70
1
vote
2
replies
886
views
rnaseq with DESeq am i doing it right ?
rnaseq
deseq2
9.2 years ago • updated 9.1 years ago
bioinformatics
▴ 30
2
votes
5
replies
1.8k
views
Limma-Voom which of two models is correct?
limma-voom
rnaseq
differential gene expression
9.1 years ago
Javier Gutierrez-Achury
• 0
0
votes
1
reply
896
views
about sets of replicates in RNA-seq and quality controls
rnaseq
limma
edgeR
deseq2
updated 9.1 years ago by
Simon Anders
★ 3.8k • written 9.1 years ago by
Bogdan
▴ 670
1,410 results • Page
19 of 29
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Answer: Guidance Requested on GCN Network Analysis and Module Enrichment in R
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The discrepancy between `final_exp1` and `final_exp2` could arise from several factors, despite matching dimensions. The `identical()` func…
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Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
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Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
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