Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
0
votes
10
replies
1.3k
views
[Bioc] RNAseq less sensitive than microarrays? Is it a statistical issue?
Microarray
Coverage
Microarray
Coverage
10.9 years ago
Thomas Girke
★ 1.7k
2
votes
12
replies
2.3k
views
Synapter - makeMaster() and synergise() functions warnings/fails
software error
warnings
synapter
9.4 years ago
sogueta
• 0
13
votes
21
replies
6.0k
views
modeling zero-dominated RNA-seq with voom/limma and hurdle models (pscl)
limma
voom
hurdle
single cell
8.6 years ago
osa.zuta
▴ 40
0
votes
19
replies
2.2k
views
Help with using CRISPRseeker
CRISPR
updated 4.6 years ago by
Julie Zhu
★ 4.3k • written 4.7 years ago by
sharvari gujja
▴ 40
0
votes
12
replies
3.4k
views
Understanding limma, fdr and topTable
Microarray
GO
limma
Microarray
GO
limma
updated 15.8 years ago by
Robson, Samuel
▴ 10 • written 15.8 years ago by
Louisa A Rispoli/AS/EXP/UTIA
▴ 160
1
vote
6
replies
2.1k
views
SGSeq error on analyzeFeatures
SGSeq
analyzeFeatures
Splicing
9.3 years ago
Paolo Guarnieri
▴ 20
0
votes
10
replies
2.1k
views
Error when using readIDAT() from illuminaio
illuminaio
idat
9.2 years ago • updated 9.1 years ago
lacion
• 0
8
votes
16
replies
3.1k
views
matrix transposing in R
affy mas5
updated 8.8 years ago by
arfranco
▴ 130 • written 8.8 years ago by
Angel
▴ 40
2
votes
8
replies
2.6k
views
read.FCS fails on BioRad FCS files
flowCore
8.6 years ago • updated 8.5 years ago
Robert Baer
▴ 70
0
votes
6
replies
2.2k
views
HTqPCR
qPCR
GO
GLAD
HTqPCR
qPCR
GO
GLAD
HTqPCR
updated 11.8 years ago by
Heidi Dvinge
★ 2.0k • written 11.8 years ago by
Heidi Dvinge
▴ 40
0
votes
7
replies
1.2k
views
Installing bioconductor under MacOsx
reposTools
reposTools
updated 21.0 years ago by
Byron Ellis
▴ 280 • written 21.0 years ago by
Martino Barenco
▴ 110
0
votes
9
replies
1.8k
views
Re: Manova nuances
Microarray
Cancer
Microarray
Cancer
20.4 years ago
Baker, Stephen
▴ 160
0
votes
7
replies
1.6k
views
bioconductor
Microarray
affy
Microarray
affy
updated 20.4 years ago by
Yuk Fai Leung
▴ 100 • written 20.4 years ago by
Roger Vallejo
▴ 120
0
votes
10
replies
2.4k
views
assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray
Annotation
GO
Network
Regression
Survival
Infrastructure
Escherichia coli
ROC
11.1 years ago
Julie Zhu
★ 4.3k
1
vote
10
replies
2.1k
views
FourC object from scratch
hi-c
HiTC
fourcseq
8.5 years ago • updated 8.4 years ago
Nicolas Servant
▴ 260
5
votes
20
replies
3.1k
views
matching of AAStringSet vs. another AAStringSet
biostrings
AAStringset
7.4 years ago
tobias.kockmann
▴ 20
4
votes
17
replies
5.4k
views
Upgrade to 3.1 error
software error
updated 8.8 years ago by
Bogdan
▴ 670 • written 9.0 years ago by
Luobin
▴ 10
0
votes
9
replies
1.6k
views
finding and averaging replicate gene records
Microarray
Microarray
19.1 years ago
zhihua li
▴ 120
0
votes
8
replies
1.6k
views
oligo on R 2.4.1?
GO
Survival
annotate
genefilter
affy
affydata
matchprobes
affyQCReport
affyio
oligo
GO
updated 17.2 years ago by
Seth Falcon
★ 7.4k • written 17.2 years ago by
Jenny Drnevich
★ 2.2k
0
votes
6
replies
544
views
News:
List of Deprecated Packages for Bioc3.19
Release
Devel
ExperimentData
Software
7 weeks ago • updated 6 days ago
shepherl
3.8k
0
votes
11
replies
1.5k
views
Rgraphviz: adding weight to an edge
updated 18.3 years ago by
Jeff Gentry
★ 3.9k • written 18.3 years ago by
Kaustubh Patil
▴ 110
0
votes
6
replies
3.6k
views
batch effect confounded with condition
GO
limma
GO
limma
12.1 years ago
Tefina Paloma
▴ 220
0
votes
9
replies
2.7k
views
Questions about DiffBind loaded peaks and re-count reads
DiffBind
3.4 years ago • updated 2.2 years ago
Tongjun
• 0
0
votes
8
replies
6.3k
views
How to sort a matrix based on its column names and preserving the identical column names
updated 16.7 years ago by
alex lam RI
▴ 310 • written 16.7 years ago by
carol white
▴ 680
2
votes
20
replies
10k
views
problem loading lumi package, Error : object ‘sqliteQuickSQL’ is not exported by 'namespace:RSQLite'
lumi
updated 9.0 years ago by
laseaman
• 0 • written 9.5 years ago by
lucashusquin
▴ 10
1
vote
17
replies
5.6k
views
Filtering out tags with low counts in DESeq and EgdeR?
Normalization
edgeR
DESeq
Normalization
edgeR
DESeq
12.9 years ago
Xiaohui Wu
▴ 280
16
votes
9
replies
6.5k
views
Diffbind: edgeR or DESeq2 ?
diffbind
medip-seq
edger
deseq2
updated 6.5 years ago by
Rory Stark
★ 5.1k • written 8.1 years ago by
florian.noack
▴ 60
0
votes
9
replies
1.8k
views
problem with function rma
Normalization
rat2302
cdf
genefilter
affy
simpleaffy
affyQCReport
affyio
Normalization
updated 16.9 years ago by
Seth Falcon
★ 7.4k • written 16.9 years ago by
julin@aecom.yu.edu
▴ 80
0
votes
6
replies
1.5k
views
DiffBind error with dba.count
diffbind
updated 6.0 years ago by
Rory Stark
★ 5.1k • written 6.0 years ago by
hhhcce
• 0
0
votes
7
replies
1.4k
views
getBioC and install.packages2 fail
Proteomics
reposTools
Proteomics
reposTools
updated 19.1 years ago by
Seth Falcon
★ 7.4k • written 19.1 years ago by
Arne.Muller@sanofi-aventis.com
▴ 210
0
votes
9
replies
2.2k
views
DESEQ2 genes with large count variation do not show as differentially expressed
deseq2
8.6 years ago • updated 8.4 years ago
sharvari gujja
▴ 40
3
votes
13
replies
4.5k
views
RPKM and FPKM
rnaseq
8.7 years ago
Asma rabe
▴ 290
21
votes
24
replies
12k
views
Problem with biomart's listMarts function
biomart
bug
updated 8.0 years ago by
Paul Shannon
▴ 470 • written 8.4 years ago by
Johannes Rainer
★ 2.0k
2
votes
8
replies
5.7k
views
StringTie + Ballgown: handling biological replicates
ballgown
stringtie
updated 7.1 years ago by
linda.boshans
• 0 • written 8.1 years ago by
bhawley1991
▴ 10
5
votes
14
replies
14k
views
How to load GEO series matrix file in R Bioconductor
geoquery
updated 8.8 years ago by
Sean Davis
21k • written 8.8 years ago by
ayanava18
▴ 10
0
votes
10
replies
2.5k
views
Very low P-values in limma
miRNA
limma
microRNA
miRNA
limma
microRNA
updated 14.5 years ago by
Olga Vitek
▴ 40 • written 14.5 years ago by
Paul Geeleher
★ 1.3k
3
votes
6
replies
4.4k
views
Analyzing data without replicates using DiffBind
diffbind
bioconductor
differential binding analysis
without replicate
chipseq
6.4 years ago
Hesh
▴ 10
0
votes
8
replies
1.6k
views
GOstats error messages
Annotation
rat2302
Annotation
rat2302
18.6 years ago
Kimpel, Mark W
▴ 890
0
votes
6
replies
2.4k
views
how to use negative controls to obtain scale and offset parameters then to normalize the whole protein microarray data by vsn method
vsn
protein microarray
normalization
scale and offset parameters
8.6 years ago
guojiegina
• 0
3
votes
9
replies
2.9k
views
ChIPQC and broadPeak input
chipseq
chipqc
chip-seq
8.6 years ago
lindahove
▴ 10
1
vote
8
replies
1.8k
views
A very large number of diffential genes
deseq2
normalization
8.5 years ago
GFM
▴ 20
0
votes
9
replies
18k
views
dmrcate(): Error in `$<-.data.frame`(`*tmp*`, "sig", value = logical(0)) : replacement has 0 rows, data has 1963
dmrcate
updated 7.3 years ago by
Tim Peters
▴ 170 • written 7.5 years ago by
ew17
• 0
0
votes
14
replies
3.4k
views
Trimming of partial adaptor sequences
Sequencing
Cancer
Biostrings
Sequencing
Cancer
Biostrings
10.7 years ago
Taylor, Sean D
▴ 250
0
votes
12
replies
2.1k
views
MacOS Package installation problems
BiocInstaller
BiocInstaller
updated 11.9 years ago by
Chinedu Orekie
▴ 10 • written 11.9 years ago by
Michael Salbaum
▴ 80
6
votes
8
replies
2.4k
views
Interaction with DESeq2 via DiffBind
diffbind
deseq2
interactions
updated 3.3 years ago by
pierre.marin
• 0 • written 6.5 years ago by
rbronste
▴ 60
13
votes
20
replies
14k
views
Can I feed TCGA normalized count data to EdgeR for differential gene expression analysis
EdgeR
TCGA
normalized count
updated 9.1 years ago by
alakatos
▴ 130 • written 9.1 years ago by
ycding
▴ 10
0
votes
8
replies
1.5k
views
Rdbi.PgSQL
19.1 years ago
hrishikesh deshmukh
▴ 420
6
votes
7
replies
3.7k
views
GOexpress: use DESeq2 data object as input
GOexpress
deseq2
expressionset
8.5 years ago
martin.hoelzer
▴ 20
0
votes
9
replies
1.0k
views
affycoretools
17.4 years ago • updated 17.3 years ago
Weiyin Zhou
▴ 220
1
vote
13
replies
5.2k
views
'Codetools' and 'mgcv' packages fail to update
package updates
codetools
deseq
mgcv
updated 9.0 years ago by
rodrigo_sengo
• 0 • written 9.1 years ago by
pbhamidipati
• 0
45,546 results • Page
3 of 911
Recent ...
Replies
Comment: Differential peaks that were not identified in diffbind were identified in diseq
by
lonn
• 0
Thank you for your suggestions! Here is the MA plot: ![enter image description here][1] I tried several normalization methods with DiffBi…
Answer: OrgDb for maize
by
Guido Hooiveld
★ 3.9k
I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …
Comment: Theoretical WGCNA Question
by
Garrett
• 0
Thanks Peter!
Comment: FGSEA pre-ranked input in increasing order or decreasing
by
sropri
• 0
Thank you!
Comment: FGSEA pre-ranked input in increasing order or decreasing
by
alserg
▴ 240
They are reorder in the decreasing order.
Votes
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Awards
• All
Popular Question
to
Gordon Smyth
50k
Scholar
to
Peter Hickey
▴ 740
Popular Question
to
sropri
• 0
Popular Question
to
W. Evan Johnson
▴ 850
Popular Question
to
Alejandro Reyes
★ 1.9k
Locations
• All
The city by the bay,
2 minutes ago
WEHI, Melbourne, Australia,
3 minutes ago
France,
9 minutes ago
Germany,
10 minutes ago
EMBL Heidelberg,
15 minutes ago
Traffic: 524 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6