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0
votes
2
replies
2.2k
views
rlog normalised count for comparing gene expression between samples
DESeq2
4.0 years ago
Sam
• 0
1
vote
2
replies
1.7k
views
rlog vs vst for outlier identification
rlog
DESeq2
vst
outliers
4.0 years ago
Bex
• 0
0
votes
6
replies
3.5k
views
STRINGdb : error with string_db$plot_network()
STRINGdb
4.0 years ago • updated 3.9 years ago
Wolfgang RAFFELSBERGER
▴ 140
0
votes
5
replies
6.1k
views
How to remove batch effect from RNA-seq without count data?
RUVSeq
FPKM
removeBatchEffect
RNA-seq
sva
updated 4.0 years ago by
ATpoint
★ 5.0k • written 4.8 years ago by
Xiaojie Cheng
• 0
5
votes
6
replies
3.9k
views
Although I successfully installed the package "simpleaffy'' , I cannot library it. Why?
simpleaffy
updated 20 months ago by
James W. MacDonald
68k • written 4.0 years ago by
yanchangjian2019
• 0
3
votes
5
replies
4.9k
views
DESeq2 median of ratios normalization for signature score calculation
MRN
RNASeq
Normalization
DESeq2
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
Serge
▴ 10
3
votes
3
replies
1.7k
views
Joint disperstion estimation for DEXSeq and DESeq2
DESeq2
DEXseq
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
k.vitting.seerup
▴ 120
0
votes
4
replies
1.1k
views
DESeq treatment over baseline versus placebo over baseline methodology
DESeq2
4.0 years ago
walter.eckalbar
• 0
1
vote
2
replies
2.0k
views
traviz 1.0.0 installation fails: ERROR: lazy loading failed
traviz
4.0 years ago
therealgenna
• 0
0
votes
1
reply
3.5k
views
Filtering Clusterprofiler Result Object
clusterProfiler
updated 4.0 years ago by
Guido Hooiveld
★ 4.1k • written 4.0 years ago by
jms2520
▴ 10
1
vote
10
replies
2.3k
views
DiffBind: Values of Called1 and Called2 do not appear to coincide with input peaks
DiffBind
updated 4.0 years ago by
Rory Stark
★ 5.2k • written 4.0 years ago by
Ian
• 0
0
votes
1
reply
2.2k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA
package
annotation
updated 4.0 years ago by
shepherl
4.2k • written 4.0 years ago by
mathavanbioinfo
▴ 20
2
votes
3
replies
1.4k
views
Again, query error when trying to retrieve attributes from Phytozome via BiomaRt
Zea_mays
Attributes
biomaRt
Phytozome
updated 3.9 years ago by
SK
• 0 • written 4.0 years ago by
s.k.tepler
▴ 10
0
votes
1
reply
1.2k
views
HiCDCPlus with NO replicates
hicdcdiff
HiCDCPlus
updated 3.7 years ago by
merve.sahn
• 0 • written 4.0 years ago by
ta_awwad
▴ 10
0
votes
1
reply
1.4k
views
First time Statistical Analysis of RNA-seq
edgeR
RNA-Seq
log2
foldchange
q_value
updated 4.0 years ago by
Gordon Smyth
53k • written 4.0 years ago by
johndavidgriner74
• 0
0
votes
0
replies
1.3k
views
installation of package 'qvalue' had non-zero exit status (
qvalue
4.0 years ago
natasha.tilich
• 0
1
vote
3
replies
2.4k
views
Transformations of the variance in RNA-seq count data DESeq2
RNASeq
vst
R
rlog
DESeq2
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
celiburgos
• 0
1
vote
2
replies
1.1k
views
DESeq2 expressed gene
DESeq2
4.0 years ago
BioEpi
• 0
0
votes
1
reply
1.0k
views
Error in the Multiple platform build/check report for BioC 3.15
build
BuildReport
updated 4.0 years ago by
Mike Smith
★ 6.6k • written 4.0 years ago by
Meriem
• 0
0
votes
0
replies
877
views
Job:
Flatiron Research Fellow, Structural and Molecular Biophysics
Biophysics
4.0 years ago
simonsF.careers
• 0
3
votes
2
replies
1.8k
views
GEOquery returning NAs as probe names
GEOquery
updated 4.0 years ago by
Sean Davis
21k • written 4.0 years ago by
John
▴ 30
0
votes
1
reply
1.6k
views
plotDAbeeswarm in miloR
miloR
updated 2.1 years ago by
Ashley_ZH
• 0 • written 4.0 years ago by
dorothy.jrobbert
▴ 30
0
votes
3
replies
2.7k
views
biomaRT getBM() get stuck
biomaRt
getbm
ensembl
updated 4.0 years ago by
Mike Smith
★ 6.6k • written 4.0 years ago by
Ariel Simon
• 0
0
votes
2
replies
1.8k
views
AnnotationHub problem
AnnotationHub
4.0 years ago
Jianxuan
• 0
0
votes
5
replies
4.7k
views
Error in data.frame(..., check.names = FALSE) : arguments imply differing number of rows
CRISPRseek
4.0 years ago
Miguel
• 0
0
votes
3
replies
1.3k
views
Same p-adjusted value for all samples
DESeq2
p-adjusted-value
Logfoldchange
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
bjen731
▴ 10
0
votes
0
replies
905
views
Zeros in p values in snmf analysis from LEA packge
LEA
snmf
4.0 years ago
Hanan
▴ 10
0
votes
1
reply
718
views
Help with installing Biocmanager
pd.rabgene.1.0.st
PolyPhen
updated 4.0 years ago by
ATpoint
★ 5.0k • written 4.0 years ago by
cyb.95521
• 0
4
votes
5
replies
3.0k
views
Help with droplevels in Deseq2
droplevels
DESeq2
updated 4.0 years ago by
ATpoint
★ 5.0k • written 4.0 years ago by
bjen731
▴ 10
1
vote
8
replies
3.0k
views
DESeq2 analysis for targeted RNA-seq
DifferentialExpression
DESeq2
4.0 years ago
dadca596
• 0
3
votes
3
replies
10k
views
Adding sample label to PCA plot
plotpca
DESeq2
4.0 years ago
bjen731
▴ 10
9
votes
9
replies
5.3k
views
Subset GRanges by intersection
findOverlaps
GPos
GenomicRanges
subsetByOverlaps
updated 4.0 years ago by
James W. MacDonald
68k • written 4.0 years ago by
Robert
▴ 10
1
vote
6
replies
1.9k
views
Does a given Bioconductor version always use the same version of a database, e.g. GO.db?
GO.db
versioning
updated 4.0 years ago by
James W. MacDonald
68k • written 4.0 years ago by
rebeliscu
• 0
0
votes
7
replies
2.1k
views
Centos 7.8, custom-compiled R-4.1: iPath_1.0.0 won't install
error
iPath
R
compilation
4.0 years ago
wjb2130
• 0
1
vote
1
reply
1.1k
views
Can I write to "Workspace data" table with the AnVIL package?
AnVIL
updated 4.0 years ago by
Martin Morgan
25k • written 4.0 years ago by
Stephanie M. Gogarten
▴ 890
0
votes
0
replies
1.0k
views
Modify y axis or add second y axis in Gviz
OverlayTrack
Gviz
4.0 years ago
Robert
▴ 10
1
vote
2
replies
3.8k
views
Error using ChAMP SVD analysis
ChAMP
updated 2.8 years ago by
Seohyun
• 0 • written 4.5 years ago by
FWNL15
• 0
0
votes
0
replies
1.4k
views
Error in champ.svd - function 'EstDimRMTv2' within champ.svd acting inconsistently?
minfiData
ChAMP
4.0 years ago
behr201
• 0
3
votes
5
replies
1.9k
views
P adjusted values in Deseq2
DESeq2
Statistics
written 5.0 years ago by
Jesus
• 0
1
vote
2
replies
5.0k
views
TPM to raw counts
salmon
DESeq2
updated 2.1 years ago by
bella.johnson.2022
• 0 • written 4.0 years ago by
Sneha
• 0
0
votes
1
reply
2.0k
views
WGCNA: Obtaining a consensus network from sampledBlockwiseModules function output
Network
consensus
sampledBlockwiseModules
resampling
WGCNA
updated 3.9 years ago by
Peter Langfelder
★ 3.0k • written 4.0 years ago by
Caleb Bostwick
▴ 30
2
votes
4
replies
2.4k
views
Problem installing 'rhdf5': g++: error: [1]: No such file or directory
rhdf5
updated 4.0 years ago by
Hervé Pagès
16k • written 4.0 years ago by
rebeliscu
• 0
3
votes
4
replies
1.7k
views
Phosphoproteomics time series analysis with splines
limma
splines
4.0 years ago
rina
▴ 30
1
vote
2
replies
2.9k
views
Merging paired end Illumina reads in R
merge
updated 4.0 years ago by
mcmurdie
▴ 20 • written 10.3 years ago by
jpleonard2000
▴ 10
7
votes
4
replies
5.4k
views
Start to End RNA-Seq with R Bioconductor
Bioconductor
Workflow
updated 4.0 years ago by
Gordon Smyth
53k • written 4.0 years ago by
sarastew1994
• 0
0
votes
0
replies
995
views
Job:
Flatiron Research Fellow, Center for Computational Biology
Bioconductor
4.0 years ago
simonsF.careers
• 0
0
votes
0
replies
957
views
Job:
Flatiron Research Fellow for the Study of Living Materials (CCB)
-
4.0 years ago
simonsF.careers
• 0
0
votes
1
reply
1.2k
views
Removal of sample data which belong to a different experiment
DESeq2
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
turtle012
• 0
0
votes
1
reply
1.4k
views
Ensembl dataset version
tximport
rna
rnaseqGene
biomaRt
updated 4.0 years ago by
ATpoint
★ 5.0k • written 4.0 years ago by
st3472
• 0
0
votes
1
reply
8.5k
views
Problems about installation
hguqiagenv3.db
updated 4.0 years ago by
shepherl
4.2k • written 4.0 years ago by
Jiafy3999
• 0
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