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
2
votes
12
replies
2.3k
views
Synapter - makeMaster() and synergise() functions warnings/fails
software error
warnings
synapter
9.5 years ago
sogueta
• 0
0
votes
12
replies
3.5k
views
Understanding limma, fdr and topTable
Microarray
GO
limma
Microarray
GO
limma
updated 15.9 years ago by
Robson, Samuel
▴ 10 • written 15.9 years ago by
Louisa A Rispoli/AS/EXP/UTIA
▴ 160
1
vote
13
replies
5.3k
views
'Codetools' and 'mgcv' packages fail to update
package updates
codetools
deseq
mgcv
updated 9.1 years ago by
rodrigo_sengo
• 0 • written 9.2 years ago by
pbhamidipati
• 0
1
vote
6
replies
2.2k
views
SGSeq error on analyzeFeatures
SGSeq
analyzeFeatures
Splicing
9.4 years ago
Paolo Guarnieri
▴ 20
2
votes
8
replies
2.6k
views
read.FCS fails on BioRad FCS files
flowCore
8.7 years ago • updated 8.6 years ago
Robert Baer
▴ 70
2
votes
7
replies
3.9k
views
edgeR design matrix, one group vs average of other groups
edgeR
edgeR
updated 10.2 years ago by
Gordon Smyth
50k • written 10.2 years ago by
Georg Otto
▴ 120
16
votes
9
replies
6.6k
views
Diffbind: edgeR or DESeq2 ?
diffbind
medip-seq
edger
deseq2
updated 6.5 years ago by
Rory Stark
★ 5.2k • written 8.2 years ago by
florian.noack
▴ 60
0
votes
6
replies
2.2k
views
HTqPCR
qPCR
GO
GLAD
HTqPCR
qPCR
GO
GLAD
HTqPCR
updated 11.9 years ago by
Heidi Dvinge
★ 2.0k • written 11.9 years ago by
Heidi Dvinge
▴ 40
1
vote
10
replies
3.0k
views
ShortRead with large fastq files
shortread
9.0 years ago
danova_fr
▴ 20
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 8.5 years ago
sharvari gujja
▴ 40
0
votes
10
replies
2.4k
views
assignChromosomeRegion in 2.6.0 ChIPpeakAnno
Microarray
Annotation
GO
Network
Regression
Survival
Infrastructure
Escherichia coli
ROC
11.2 years ago
Julie Zhu
★ 4.3k
0
votes
8
replies
1.5k
views
Rdbi.PgSQL
19.2 years ago
hrishikesh deshmukh
▴ 420
1
vote
10
replies
2.2k
views
FourC object from scratch
hi-c
HiTC
fourcseq
8.6 years ago • updated 8.4 years ago
Nicolas Servant
▴ 260
3
votes
13
replies
4.5k
views
RPKM and FPKM
rnaseq
8.8 years ago
Asma rabe
▴ 290
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
1
vote
17
replies
5.6k
views
Filtering out tags with low counts in DESeq and EgdeR?
Normalization
edgeR
DESeq
Normalization
edgeR
DESeq
13.0 years ago
Xiaohui Wu
▴ 280
1
vote
8
replies
1.8k
views
A very large number of diffential genes
deseq2
normalization
8.6 years ago
GFM
▴ 20
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 17.3 years ago by
Seth Falcon
★ 7.4k • written 17.3 years ago by
Jenny Drnevich
★ 2.2k
0
votes
6
replies
1.4k
views
AnnBuilder and Diverse Mappings
Annotation
GO
AnnBuilder
Annotation
GO
AnnBuilder
updated 17.2 years ago by
Nianhua Li
▴ 870 • written 17.2 years ago by
Johannes Graumann
▴ 130
0
votes
9
replies
2.4k
views
backgroundCorrect offset value
updated 12.7 years ago by
Gordon Smyth
50k • written 12.7 years ago by
Prasad Siddavatam
▴ 150
0
votes
10
replies
2.6k
views
Very low P-values in limma
miRNA
limma
microRNA
miRNA
limma
microRNA
updated 14.6 years ago by
Olga Vitek
▴ 40 • written 14.6 years ago by
Paul Geeleher
★ 1.3k
0
votes
6
replies
1.6k
views
DiffBind error with dba.count
diffbind
updated 6.1 years ago by
Rory Stark
★ 5.2k • written 6.1 years ago by
hhhcce
• 0
0
votes
6
replies
3.6k
views
batch effect confounded with condition
GO
limma
GO
limma
12.2 years ago
Tefina Paloma
▴ 220
0
votes
9
replies
2.8k
views
Questions about DiffBind loaded peaks and re-count reads
DiffBind
3.5 years ago • updated 2.2 years ago
Tongjun
• 0
0
votes
14
replies
3.5k
views
Trimming of partial adaptor sequences
Sequencing
Cancer
Biostrings
Sequencing
Cancer
Biostrings
10.8 years ago
Taylor, Sean D
▴ 250
0
votes
9
replies
1.8k
views
Re: Manova nuances
Microarray
Cancer
Microarray
Cancer
20.5 years ago
Baker, Stephen
▴ 160
8
votes
16
replies
3.2k
views
matrix transposing in R
affy mas5
updated 8.9 years ago by
arfranco
▴ 130 • written 8.9 years ago by
Angel
▴ 40
0
votes
8
replies
6.4k
views
How to sort a matrix based on its column names and preserving the identical column names
updated 16.8 years ago by
alex lam RI
▴ 310 • written 16.8 years ago by
carol white
▴ 680
4
votes
17
replies
5.5k
views
Upgrade to 3.1 error
software error
updated 8.9 years ago by
Bogdan
▴ 670 • written 9.0 years ago by
Luobin
▴ 10
6
votes
8
replies
2.5k
views
Interaction with DESeq2 via DiffBind
diffbind
deseq2
interactions
updated 3.4 years ago by
pierre.marin
• 0 • written 6.6 years ago by
rbronste
▴ 60
0
votes
10
replies
1.3k
views
[Bioc] RNAseq less sensitive than microarrays? Is it a statistical issue?
Microarray
Coverage
Microarray
Coverage
11.0 years ago
Thomas Girke
★ 1.7k
5
votes
20
replies
3.1k
views
matching of AAStringSet vs. another AAStringSet
biostrings
AAStringset
7.5 years ago • updated 7.4 years ago
tobias.kockmann
▴ 20
1
vote
9
replies
3.8k
views
DESeq: Error in model.matrix.formula(design(object), data = colData(object)) : data must be a data.frame
deseq2
updated 3.8 years ago by
thind.amarinder
▴ 10 • written 8.2 years ago by
mdelrgg
▴ 10
0
votes
9
replies
1.8k
views
problem with function rma
Normalization
rat2302
cdf
genefilter
affy
simpleaffy
affyQCReport
affyio
Normalization
updated 17.0 years ago by
Seth Falcon
★ 7.4k • written 17.0 years ago by
julin@aecom.yu.edu
▴ 80
0
votes
8
replies
1.6k
views
GOstats error messages
Annotation
rat2302
Annotation
rat2302
18.7 years ago
Kimpel, Mark W
▴ 890
6
votes
7
replies
3.8k
views
GOexpress: use DESeq2 data object as input
GOexpress
deseq2
expressionset
8.6 years ago
martin.hoelzer
▴ 20
0
votes
10
replies
2.9k
views
gene set enrichment
Annotation
Organism
Annotation
Organism
updated 2.2 years ago by
Gordon Smyth
50k • written 11.5 years ago by
Alpesh Querer
▴ 220
3
votes
9
replies
2.9k
views
ChIPQC and broadPeak input
chipseq
chipqc
chip-seq
8.7 years ago
lindahove
▴ 10
0
votes
12
replies
2.1k
views
MacOS Package installation problems
BiocInstaller
BiocInstaller
updated 12.0 years ago by
Chinedu Orekie
▴ 10 • written 12.0 years ago by
Michael Salbaum
▴ 80
0
votes
7
replies
1.2k
views
Installing bioconductor under MacOsx
reposTools
reposTools
updated 21.1 years ago by
Byron Ellis
▴ 280 • written 21.1 years ago by
Martino Barenco
▴ 110
1
vote
8
replies
3.7k
views
normalizing all affymetrix array type with affy package impossible with R 3.x ?
affy normalization affymetrix limma
Readaffy
8.6 years ago
florent.dumont
• 0
0
votes
9
replies
1.7k
views
finding and averaging replicate gene records
Microarray
Microarray
19.2 years ago
zhihua li
▴ 120
0
votes
6
replies
2.5k
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
8.7 years ago
guojiegina
• 0
0
votes
7
replies
1.6k
views
bioconductor
Microarray
affy
Microarray
affy
updated 20.5 years ago by
Yuk Fai Leung
▴ 100 • written 20.5 years ago by
Roger Vallejo
▴ 120
0
votes
9
replies
19k
views
dmrcate(): Error in `$<-.data.frame`(`*tmp*`, "sig", value = logical(0)) : replacement has 0 rows, data has 1963
dmrcate
updated 7.4 years ago by
Tim Peters
▴ 180 • written 7.6 years ago by
ew17
• 0
0
votes
9
replies
1.0k
views
affycoretools
17.4 years ago
Weiyin Zhou
▴ 220
1
vote
11
replies
2.0k
views
Does BSgenome.Dmelanogaster.UCSC.dm2 maintain non-coding RNAs?
dm2
bsgenome
noncoding RNA
updated 9.1 years ago by
Hervé Pagès
16k • written 9.1 years ago by
Patrick Schorderet
▴ 20
13
votes
21
replies
6.1k
views
modeling zero-dominated RNA-seq with voom/limma and hurdle models (pscl)
limma
voom
hurdle
single cell
8.7 years ago
osa.zuta
▴ 40
3
votes
6
replies
4.5k
views
Analyzing data without replicates using DiffBind
diffbind
bioconductor
differential binding analysis
without replicate
chipseq
6.5 years ago
Hesh
▴ 10
0
votes
19
replies
2.2k
views
Help with using CRISPRseeker
CRISPR
updated 4.7 years ago by
Julie Zhu
★ 4.3k • written 4.8 years ago by
sharvari gujja
▴ 40
1,000 results • Page
3 of 20
Recent ...
Replies
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs
by
shaunpeterson
• 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network()
by
damian.szk
▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Comment: STRINGdb : error with string_db$plot_network()
by
ninidea
• 0
> Does the vignette produce the same error? No. Anyway, I finally solved the problem. I don't know why, but I removed: protocol='http' fr…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Awards
• All
Popular Question
to
Vincent J. Carey, Jr.
6.7k
Popular Question
to
Koen Van den Berge
▴ 180
Popular Question
to
shepherl
3.9k
Popular Question
to
Ken C
• 0
Popular Question
to
Johannes Rainer
★ 2.0k
Locations
• All
Poland,
22 minutes ago
The city by the bay,
28 minutes ago
Melbourne, Australia,
1 hour ago
Ireland,
1 hour ago
WEHI, Melbourne, Australia,
1 hour ago
Traffic: 554 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