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0
votes
0
replies
1.1k
views
Alignment larger than the maximum allowable size
DECIPHER
updated 6.6 years ago by
shepherl
4.3k • written 6.6 years ago by
cmasembe
• 0
0
votes
1
reply
1.1k
views
Hope for help about quantro and qsmooth-library size normalization
normalization
quantro
q'smooth
library size normalization
6.6 years ago
Apr
• 0
0
votes
1
reply
1.5k
views
rtracklayer import bigwig error
rtracklayer
updated 3.0 years ago by
Delta._.43
▴ 20 • written 6.6 years ago by
ribioinfo
▴ 100
2
votes
3
replies
2.8k
views
tximport::summarizeToGene fails to ignoreTxVersion
tximport
tximeta
AnnotationDbi
6.6 years ago
Benjamin
• 0
2
votes
4
replies
953
views
Error in summary.DESeqResults(res) : could not find function "summary.DESeqResults"
deseq2
DEseq2
updated 6.6 years ago by
Michael Love
43k • written 6.6 years ago by
drowsygoat
▴ 30
1
vote
3
replies
2.5k
views
Error on zlib.h while installing esATAC on Ubutu
software error
esATAC
zlib.h
Ubuntu
Tutorial
updated 6.6 years ago by
Martin Morgan
25k • written 6.6 years ago by
vedbar
• 0
0
votes
1
reply
1.2k
views
Issue creating transformed filter in flowCore
flowCore
updated 6.6 years ago by
Jake Wagner
▴ 310 • written 6.6 years ago by
npb27
• 0
0
votes
0
replies
959
views
Analyze ct data using HTqPCR
HTqPCR
R
NormqPCR
6.6 years ago
annesha
• 0
0
votes
0
replies
1.1k
views
MatchGenes in Bumphunter - result list with multiple genes
cancer
6.6 years ago
hanna_engqvist
• 0
3
votes
3
replies
1.9k
views
Discrepancies between topGO output and input
go
topGO
gene
ontology
enrichment
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
t.bergmann
• 0
0
votes
0
replies
1.2k
views
Mfuzz time-series design
mfuzz
normalization
6.6 years ago
xizhang
• 0
4
votes
3
replies
1.5k
views
Complex multifactorial design with random effects in Limma/voom
limma
edger
updated 6.6 years ago by
Aaron Lun
★ 29k • written 6.6 years ago by
joasmile84
▴ 20
0
votes
4
replies
3.3k
views
Why am I getting many differentially expressed genes that have no symbol or do not map to a chromosome (RNA-seq)
edger
updated 6.6 years ago by
Gordon Smyth
53k • written 6.6 years ago by
melanie.girard
• 0
1
vote
0
replies
1.2k
views
News:
Ensembl 97 has been released
biomart
ensembl
e97
News
6.6 years ago
James Allen
▴ 10
1
vote
2
replies
1.9k
views
TCGAbiolinks : Bisulfite-seq data : Legacy archive
tcga
bisulfite
tcgabiolinks
updated 6.6 years ago by
Tiago Chedraoui Silva
▴ 260 • written 6.6 years ago by
DS
• 0
1
vote
1
reply
2.1k
views
how to filter genes in significant module?
RNA
WGCNA
filter
6.6 years ago
modarzi
▴ 10
10
votes
8
replies
4.9k
views
Best alternative annotation package to BiomaRt
R
biomaRt
Ensembl
rnaseq
6.6 years ago
m93
▴ 10
1
vote
3
replies
2.3k
views
A/B compartments computation: control settings
HiTC
updated 4.6 years ago by
ahmed.abbaselmahdi
• 0 • written 6.6 years ago by
Konstantin Okonechnikov
▴ 40
1
vote
3
replies
1.1k
views
More Info on results names
deseq2
6.6 years ago
dennism9251
• 0
1
vote
2
replies
1.3k
views
Data downloaded from GEO has raw transcript count matrix- can I still use tximport? Collapse raw transcript count matrix to GENE LEVEL
tximport
collapse
updated 6.6 years ago by
Michael Love
43k • written 6.6 years ago by
agm
• 0
0
votes
0
replies
1.0k
views
Error: non-numeric matrix extent in pickSoftThreshold.fromSimilarity, WGCNA
WGCNA
6.6 years ago
MartinRK
• 0
0
votes
5
replies
1.5k
views
Question regarding model matrix in limma.
limma
deseq2
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
Ben
▴ 50
0
votes
1
reply
657
views
Non-parametrical Differential Expression Analysis in Microarrays
microarray
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
rgeysels
• 0
1
vote
2
replies
2.0k
views
Inconsistent results when normalizing HTA2.0 arrays at "level=core"
oligo
HTA2.0
affycoretools
RMA
fitProbeLevelModel
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
Guido Hooiveld
★ 4.1k
0
votes
1
reply
915
views
Get gene level summaries from table of transcript level quantification
tximport
deseq2
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
ljmills
• 0
4
votes
2
replies
1.6k
views
bioMart error - The query to the BioMart webservice returned an invalid result: biomaRt expected a character string of length 1
biomaRt
updated 6.6 years ago by
Mike Smith
★ 6.6k • written 6.6 years ago by
Lucy
▴ 60
0
votes
1
reply
1.9k
views
ChIPQC BiocParallel errors
ChIPQC
ChIPQC error
BiocParallel
6.6 years ago
minervajunjun
• 0
1
vote
2
replies
1.1k
views
Batch correction for two conditions two batches
deseq2
updated 6.6 years ago by
swbarnes2
★ 1.4k • written 6.6 years ago by
KRA
• 0
0
votes
1
reply
1.0k
views
MSGF+ is it possible to specify more than one enzyme for digestion in R?
ms
gf
plus
enzyme
R
updated 6.6 years ago by
petyuk
▴ 70 • written 6.6 years ago by
ro4175ko-s
• 0
6
votes
2
replies
2.1k
views
csaw: Error in path.expand(bam.file) : invalid 'path' argument
csaw
software error
updated 6.6 years ago by
Martin Morgan
25k • written 6.6 years ago by
vanbelj
▴ 30
0
votes
0
replies
1.0k
views
NOISeq 'readData' not writing correctly
software error
NOISeq
6.6 years ago
jledmondson
• 0
0
votes
0
replies
1.2k
views
Error in parseGenBank
genbankr
parseGenBank
gbk
error
6.6 years ago
ashley.dederich
• 0
0
votes
1
reply
983
views
GeneGA Error Message
software error
updated 6.6 years ago by
lynnamon
• 0 • written 8.3 years ago by
chulmelowe
• 0
4
votes
18
replies
28k
views
DEseq2 time-series design.
deseq2
timecourse
design
updated 6.6 years ago by
simon baldwin
• 0 • written 11.3 years ago by
shao
▴ 100
2
votes
2
replies
1.1k
views
InTAD: Sample Size and Statistical Power
InTAD
updated 6.6 years ago by
Konstantin Okonechnikov
▴ 40 • written 6.6 years ago by
ATpoint
★ 5.0k
0
votes
0
replies
1.1k
views
arrayQualityMetrics with count table of RNA-Seq data - how to make ExpressionSetobject or ExpressionSetIllumina object?
arrayQualityMetrics
RNA-Seq
ExpressionSetobject
ExpressionSetIllumina
6.6 years ago
Mabeyer
• 0
1
vote
9
replies
5.4k
views
Difference between log2FC(MLE) and calculated log2 fold change in DESeq2 ver 1.20.0
deseq2
updated 4.7 years ago by
duda
• 0 • written 6.6 years ago by
cycy
• 0
0
votes
9
replies
1.8k
views
Deseq issues - pipeline all of a sudden stopped working
deseq2
updated 6.6 years ago by
Michael Love
43k • written 6.6 years ago by
skamboj
• 0
1
vote
7
replies
1.8k
views
BioMart webservices broken?
software error
ensemblID
conversion
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
mlee
• 0
2
votes
3
replies
1.7k
views
How can I overcome the error of "No residual degrees of freedom in linear model fits"?
limma
microarray
error
updated 6.6 years ago by
Dario Strbenac
★ 1.6k • written 6.6 years ago by
Jurat Shahidin
▴ 80
0
votes
1
reply
622
views
Annmap database accession problem
software error
microarray
6.6 years ago
kubracelikbas4
• 0
1
vote
9
replies
2.3k
views
stackStringsFromBam equivalent for GAlignments with seq
genomicalignments
stackStringsFromBam
sequenceLayer
6.6 years ago
Janet Young
▴ 740
1
vote
3
replies
1.1k
views
estimateSizeFactors after subsetting?
deseq2
updated 6.6 years ago by
Michael Love
43k • written 6.6 years ago by
andrebolerbarros
▴ 20
3
votes
3
replies
2.6k
views
Differential Expression Analysis in edgeR using Anova
edger
anova
gene expression
Dispersion
updated 6.6 years ago by
onlychainsaw2019
• 0 • written 7.1 years ago by
ilovesuperheroes1993
• 0
4
votes
4
replies
2.4k
views
scRNA-seq : Classification of cell cycle phase
scater
scran
updated 6.6 years ago by
Aaron Lun
★ 29k • written 6.6 years ago by
Bogdan
▴ 670
0
votes
3
replies
889
views
FNR in RNASeq
deseq2
edger
updated 6.6 years ago by
Gordon Smyth
53k • written 6.6 years ago by
prat
• 0
3
votes
7
replies
3.2k
views
scRNA-seq : runPCA() and denoisePCA()
scater
scran
updated 6.6 years ago by
Aaron Lun
★ 29k • written 6.6 years ago by
Bogdan
▴ 670
0
votes
4
replies
1.7k
views
Using output from normalizeBatch() outside of cydar package
cydar
mass cytometry
updated 6.6 years ago by
Aaron Lun
★ 29k • written 6.6 years ago by
kenneth.baker
• 0
0
votes
13
replies
4.0k
views
error message with BiocManager::install on Mac console that's not on mac command line
BiocManager
Mac
updated 6.6 years ago by
Martin Morgan
25k • written 6.6 years ago by
raf4
▴ 30
0
votes
1
reply
6.6k
views
Reordering clusters when plotting pheatmap in R
R
pheatmap
clusters
6.6 years ago
ecg1g15
▴ 30
46,741 results • Page
206 of 935
Recent ...
Replies
Comment: Upcoming Ensembl API and data access changes - new blog post available
by
Tikaaa2sahaaaq2c
• 0
Just as the Ensembl team transitions to a new platform for streamlined data access, diners can benefit from a digital newks menu prices con…
Comment: Error message that there is no package called Biobase
by
DamionLedner99
• 0
thanks for sharing!!! https://cran.r-project.org/
Comment: msmsTests, inconsistent sign between lFC.Av and LogFC
by
Ben
• 0
Continued here due to posting difficulties: Extract from the results table: ``` Inhibitor Vehicle lFC.Av LogFC ... F1 0.0 27…
Answer: DESeq2 for 16S rRNA Analysis
by
James W. MacDonald
68k
The Wald test is only meant for comparison of two groups at a time, so it depends on what you mean by 'analyze across multiple groups at a …
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list'
by
varying.mastodon.isyn
• 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Votes
Answer: What happens to genes with low dispersion during dispersion shrinkage in DESeq2
Comment: Are transformed values from rlog /vst log2 normalized counts?
Answer: Are transformed values from rlog /vst log2 normalized counts?
A: DESeq2 normalization vs VST vs rlog
Answer: How to directly decet the outlier samples (libraries) in EdgeR pipeline
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