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3
votes
3
replies
4.8k
views
Preparing CopywriteR output for GISTIC 2.0 analysis
copywriter
updated 9.9 years ago by
t.kuilman
▴ 170 • written 9.9 years ago by
jcarter
• 0
0
votes
0
replies
986
views
Mouse ST 2.1 noncoding
microarray
affymetrix microarrays
9.9 years ago
miquel.garcia
• 0
0
votes
0
replies
1.9k
views
Job:
2015 Movember Foundation PhD Studentship in Bioinformatics @ UEA, Norwich, UK
Phd
NGS
cancer
prostate
Job
9.9 years ago
Daniel Brewer
▴ 100
1
vote
1
reply
1.7k
views
Filtering by bead count
methylumi
updated 9.9 years ago by
Mike Smith
★ 6.6k • written 9.9 years ago by
khadeeja ismail
▴ 400
4
votes
10
replies
3.4k
views
Effects of continuous variable with adjustment for gender
edger
limma
voom
updated 9.9 years ago by
Gordon Smyth
53k • written 9.9 years ago by
jhj89
▴ 10
5
votes
9
replies
2.5k
views
Paired samples, two time points, two groups and adjust for a continuous variable in edgeR
edger
limma
updated 9.9 years ago by
Gordon Smyth
53k • written 9.9 years ago by
Sindre
▴ 70
0
votes
0
replies
2.0k
views
Job:
Computational Biologist (Genome Statistical Analyst) position in CRUK Manchester Institute, UK
job
bioinformatics
ngs
genomics
statistics
Job
9.9 years ago
Hui Sun Leong
▴ 10
4
votes
2
replies
6.1k
views
How to run the rpkm function of edgeR
edger
rpkm
updated 9.9 years ago by
Aaron Lun
★ 29k • written 9.9 years ago by
Gary
▴ 20
3
votes
2
replies
8.8k
views
Volcano plot in DEseq2
deseq2
9.9 years ago
John
▴ 30
2
votes
1
reply
1.2k
views
Non-sense results using a continuous variable as predictor in LIMMA
limma
updated 9.9 years ago by
Aaron Lun
★ 29k • written 9.9 years ago by
Sindre
▴ 70
0
votes
1
reply
2.0k
views
ExomeDepth Package Error Messages
cnv
exome
9.9 years ago
Bio152
▴ 150
0
votes
0
replies
1.2k
views
Annotation missing when using makeTxDbFromGFF
makeTxDbFromGFF
9.9 years ago
Udi Landau
▴ 30
2
votes
10
replies
2.8k
views
Design matrix for unbalanced data
edgeR
RNA-Seq
design matrix
multifactorial design
9.9 years ago
Yogender Gowtham
▴ 20
0
votes
5
replies
4.7k
views
How to import data to R
annotation
updated 9.9 years ago by
arfranco
▴ 130 • written 9.9 years ago by
xlyan011
• 0
1
vote
2
replies
2.7k
views
unable to find Lumi package in R
lumi
updated 9.9 years ago by
Steve Lianoglou
★ 13k • written 9.9 years ago by
nayeli0126
• 0
1
vote
3
replies
2.4k
views
Man pages with runnable examples calculation
BiocCheck
updated 9.9 years ago by
Dan Tenenbaum
★ 8.2k • written 9.9 years ago by
liz.ingsimmons
▴ 140
0
votes
1
reply
2.3k
views
MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list'
MetaDE
meta-analysis
written 9.9 years ago by
alexvpickering
▴ 110
2
votes
4
replies
3.1k
views
Visualizing CopywriteR's segmentation output in IGV
copywriter
dnacopy
updated 9.9 years ago by
t.kuilman
▴ 170 • written 9.9 years ago by
jcarter
• 0
0
votes
5
replies
2.1k
views
Normalisation of RNA seq data
rnaseq
bioconductor
R
normalization
updated 9.9 years ago by
chris86
▴ 420 • written 9.9 years ago by
Fiona
▴ 70
0
votes
1
reply
1.7k
views
Error: The specified genome ./data/BSgenome.Hsapiens.UCSC.hg19 does not have the extension of a fasta file (fa,fasta,fna)
quasr error
updated 9.9 years ago by
Hotz, Hans-Rudolf
▴ 400 • written 9.9 years ago by
ezgi_can00
• 0
1
vote
2
replies
1.6k
views
Submitting an experimental data package
submit package
experimentdata
updated 9.9 years ago by
Martin Morgan
25k • written 9.9 years ago by
mark.dunning
▴ 20
3
votes
5
replies
2.3k
views
How to use DiffBind to get consensus peaks I am interested in?
DiffBind
updated 9.9 years ago by
Rory Stark
★ 5.2k • written 9.9 years ago by
Gary
▴ 20
0
votes
1
reply
1.4k
views
Error in creating scheme (xps package)
xps
root
scheme
probeset
updated 9.9 years ago by
cstrato
★ 3.9k • written 9.9 years ago by
Biologist
▴ 120
0
votes
0
replies
1.3k
views
MaSigPro - pre-filtering of genes
MaSigPro
9.9 years ago
GFM
▴ 20
0
votes
6
replies
2.3k
views
SomaticSignatures: Interpretation of plotSamples graphs
somaticsignatures
9.9 years ago
Jane Merlevede
▴ 90
0
votes
1
reply
1.6k
views
Gviz Group of different sizes
gviz
R
granges
updated 9.9 years ago by
florian.hahne@novartis.com
★ 1.6k • written 9.9 years ago by
drummerz
• 0
4
votes
2
replies
2.9k
views
Create custom IdeogramTrack (Gviz)
gviz
ideogram
updated 9.9 years ago by
florian.hahne@novartis.com
★ 1.6k • written 9.9 years ago by
I-Hsuan Lin
▴ 10
1
vote
0
replies
1.8k
views
Recall genotypes from Illumina idat files using crlmm package
crlmm
genotype
9.9 years ago
nadne
▴ 10
4
votes
10
replies
5.6k
views
Illumina MethylationEPIC vs. 450K
methylumi
minfi
illuminahumanmethylation450k.db
450k
methyanalysis
updated 9.9 years ago by
Peter Hickey
▴ 760 • written 9.9 years ago by
Ahdee
▴ 60
0
votes
1
reply
1.5k
views
News:
Bioconductor 3.3 release schedule
release schedule
News
9.9 years ago
Dan Tenenbaum
★ 8.2k
0
votes
0
replies
1.8k
views
News:
New Package Submission Deadline
Packages
News
9.9 years ago
Martin Morgan
25k
3
votes
8
replies
2.8k
views
Multiple group analysis
deseq2
9.9 years ago
John
▴ 30
0
votes
2
replies
5.0k
views
Error: package or namespace load failed for ‘MSnbase’
MSnbase
updated 9.9 years ago by
Laurent Gatto
1.6k • written 9.9 years ago by
Marie
• 0
1
vote
1
reply
2.4k
views
DESeq2 showing little if none significant DE genes (none if considering p-adj)
deseq2
multiple factor design
updated 9.9 years ago by
Michael Love
43k • written 9.9 years ago by
wariobrega
• 0
1
vote
6
replies
2.4k
views
how to deal the effect of enormous gene expression?
deseq2
rnaseq
tomato
geneexpression
updated 9.9 years ago by
Michael Love
43k • written 9.9 years ago by
hamaor
• 0
1
vote
3
replies
1.2k
views
Grouping similar genes in differential expression analysis to increase power
deseq2
rnaseq
differential gene expression
updated 9.9 years ago by
Michael Love
43k • written 9.9 years ago by
willmacnair
• 0
2
votes
1
reply
7.4k
views
DESeq2 factors and ANOVA
deseq2
updated 9.9 years ago by
Michael Love
43k • written 9.9 years ago by
tony.fox2016
▴ 40
0
votes
1
reply
1.7k
views
[ChIPseeker; feature request] More flexibility in specifying the TSS region
ChIPseeker
featurerequest
tss
updated 9.9 years ago by
Guangchuang Yu
★ 1.2k • written 9.9 years ago by
balwierz
▴ 40
0
votes
0
replies
1.7k
views
Reading Affymetrix data from pd.hugene.2.0.st using oligo for RNA degradation plot
oligo
rnadegradationplot
affymetrix microarrays
pd.hugene.2.0.st
9.9 years ago
Biologist
▴ 120
0
votes
4
replies
2.6k
views
Reading Affymetrix data from pd.hugene.2.0.st using oligo/affy
affy
oligo
updated 9.9 years ago by
Biologist
▴ 120 • written 11.0 years ago by
WATSON Mick
▴ 50
0
votes
2
replies
3.4k
views
rtracklayer /GRange object to BED format?
granges
rtracklayer
updated 9.9 years ago by
Michael Lawrence
★ 11k • written 9.9 years ago by
Vang Le
▴ 80
0
votes
0
replies
1.7k
views
count overlapping reads for CpG islands and annotate with gene names?
annotation
chippeakanno
rattus norvegicus
medip-seq
9.9 years ago
Vang Le
▴ 80
2
votes
3
replies
1.5k
views
DEXSeq ignore non-coding regions
dexseq
updated 9.9 years ago by
Alejandro Reyes
★ 1.9k • written 9.9 years ago by
igor
▴ 50
0
votes
2
replies
1.3k
views
gene/protein expression discordance
written 20.5 years ago by
Simon Lin
▴ 210
0
votes
7
replies
2.2k
views
GRangesList and nearest neighbour search (name-specific)
grangeslist
10.1 years ago • updated 9.9 years ago
Maurits
• 0
0
votes
1
reply
1.6k
views
Using Gage and pathview with previously processed data
pathview
gage
r
kegg
rnaseq
updated 9.9 years ago by
Luo Weijun
★ 1.6k • written 9.9 years ago by
bsguida
• 0
0
votes
0
replies
2.0k
views
error loading RQDA library
RQDA
9.9 years ago
fabian
• 0
2
votes
4
replies
1.9k
views
Complex ANOVA analysis in EdgeR
edger
anova
sequencing
updated 9.9 years ago by
Aaron Lun
★ 29k • written 9.9 years ago by
kmyers2
• 0
0
votes
0
replies
1.8k
views
Dramatically different results from comparing multiple groups using fitZig versus fitFeatureModel
metagenomeseq
9.9 years ago
craemuletz
• 0
0
votes
0
replies
1.3k
views
Differential abundance for elevational gradient survey -- use fitTimeSeries?
metagenomeseq
9.9 years ago
craemuletz
• 0
46,706 results • Page
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Answer: How to do differential expresion across time serise with edgeR?
by
Gordon Smyth
53k
You actually haven't done any DE analysis at all, you've just selected for genes with either zero or large D0 counts. Another issue is tha…
Answer: ATACseq rudimentary questions
by
Kevin Blighe
★ 4.0k
For differential analysis tools like DiffTF and TOBIAS, the standard and statistically sound approach is to create **one large consensus pe…
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A: limma-voom duplicateCorrelation once or twice, difference?
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