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0
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10
replies
2.5k
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Rsubread on Cygwin - error due to gcc ... -D MACOS - why?
Rsubread
updated 7.7 years ago by
Wei Shi
★ 3.6k • written 7.9 years ago by
MWSchmid
• 0
3
votes
9
replies
5.1k
views
DESeq2 results with RUVSeq values
deseq2
ruvseq
sizefacotrs
updated 9.0 years ago by
davide risso
▴ 950 • written 9.0 years ago by
Assa Yeroslaviz
★ 1.5k
0
votes
8
replies
1.6k
views
Thoughts on computer purchase
computer
written 18.0 years ago by
Lance Palmer
▴ 60
1
vote
8
replies
1.7k
views
boxplot, microarray, hugene 2.0 st
boxplot
microarray
pd.hugene.2.0.st
9.1 years ago • updated 9.0 years ago
kanacska
▴ 10
0
votes
9
replies
1.8k
views
(no subject)
limma
limma
updated 19.5 years ago by
Sailendra Gummadi
▴ 10 • written 19.6 years ago by
karen
▴ 30
0
votes
10
replies
1.7k
views
Harsh results using limma!
limma
limma
updated 19.7 years ago by
A.J. Rossini
▴ 810 • written 19.7 years ago by
michael watson IAH-C
★ 3.4k
8
votes
14
replies
3.8k
views
reactome.db is not updated?
genesetenrichment
pathways
reactome.db
updated 9.1 years ago by
willem.ligtenberg
▴ 150 • written 9.5 years ago by
Guangchuang Yu
★ 1.2k
0
votes
11
replies
3.6k
views
Filtering genes using a list
updated 19.7 years ago by
James W. MacDonald
65k • written 19.7 years ago by
mcolosim@brandeis.edu
▴ 70
28
votes
25
replies
5.8k
views
[FIXED] Error in Gviz (actually, rtracklayer) | IdeogramTrack
Gviz
rtracklayer
updated 6.8 years ago by
aina.jene
▴ 10 • written 7.2 years ago by
Ramiro Magno
▴ 100
0
votes
8
replies
1.8k
views
error message in gcrma
cdf
affy
gcrma
matchprobes
plier
cdf
affy
gcrma
matchprobes
plier
updated 17.9 years ago by
Seth Falcon
★ 7.4k • written 17.9 years ago by
Mohammad Esad-Djou
▴ 520
0
votes
8
replies
2.0k
views
CRISPRseek: annotate gene
CRISPRseek
9.5 years ago • updated 8.9 years ago
Julie Zhu
★ 4.3k
1
vote
10
replies
2.2k
views
GEOquery
updated 15.8 years ago by
Sean Davis
21k • written 15.8 years ago by
Harpreet Saini
▴ 20
0
votes
9
replies
1.0k
views
Compare results from different analysis (Affymetrix)
updated 17.4 years ago by
Darlene Goldstein
▴ 230 • written 17.4 years ago by
Ingrid H. G. Østensen
▴ 700
1
vote
14
replies
11k
views
Unable to connect from R 3.2.2
biocinstaller
source
8.5 years ago
michel.renou
• 0
0
votes
13
replies
2.3k
views
alternate /tmp for Bioconductor install
updated 19.0 years ago by
Seth Falcon
★ 7.4k • written 19.0 years ago by
Robert Citek
▴ 120
0
votes
8
replies
1.8k
views
getBioC problem
updated 18.2 years ago by
Seth Falcon
★ 7.4k • written 18.3 years ago by
Amy Mikhail
▴ 460
0
votes
13
replies
2.8k
views
Sorting matrix by column
updated 11.5 years ago by
James W. MacDonald
65k • written 11.5 years ago by
Guest User
★ 13k
0
votes
7
replies
1.4k
views
how to split one word into letters
updated 19.5 years ago by
John Zhang
★ 2.9k • written 19.5 years ago by
Liu, Xin
▴ 130
1
vote
15
replies
3.2k
views
Issues with SGSeq: plotFeatures method returns NULL
sgseq
updated 7.6 years ago by
Leonard Goldstein
▴ 200 • written 7.7 years ago by
Sylvain Foisy
▴ 80
4
votes
20
replies
2.4k
views
scaling loess curves
HiTC
gothic
diffhic
HiC
8.7 years ago • updated 8.6 years ago
Bogdan
▴ 670
2
votes
12
replies
2.3k
views
ann_objs$MAPCOUNTS <- AnnotationDbi:::createMAPCOUNTS(dbconn, prefix) does not work well
annotation
orgdb
8.2 years ago
knishida
▴ 20
0
votes
32
replies
3.9k
views
How to do clustering
updated 16.9 years ago by
Seth Falcon
★ 7.4k • written 16.9 years ago by
ssls sddd
▴ 260
0
votes
7
replies
1.9k
views
DiffBind:Treatments + second factor
DiffBind
diffbind
updated 9.5 years ago by
Rory Stark
★ 5.2k • written 9.5 years ago by
sergio.espeso-gil
• 0
0
votes
12
replies
2.2k
views
how deal with multiplicate affy probes?
mgu74av2
probe
affy
mgu74av2
probe
affy
updated 20.1 years ago by
Ron Ophir
▴ 80 • written 20.1 years ago by
Johnnidis, Jonathan
▴ 50
6
votes
14
replies
5.9k
views
GenomicAlignments is too slow with summarizeOverlaps
genomicalignments
RNASeq
genomicfeatures
summarizeoverlaps
updated 9.3 years ago by
Gordon Smyth
50k • written 9.3 years ago by
bioprog
• 0
0
votes
16
replies
1.9k
views
Re: [S] Error in clustering procedure
Clustering
Clustering
updated 19.6 years ago by
Stephen Henderson
★ 1.0k • written 19.7 years ago by
cstrato
★ 3.9k
0
votes
8
replies
2.1k
views
Gviz and AnnotateTrack and memory usage
gviz
updated 8.8 years ago by
florian.hahne@novartis.com
★ 1.6k • written 9.3 years ago by
Bogdan
▴ 670
0
votes
13
replies
1.8k
views
Is a number within a set of ranges?
Cancer
Cancer
16.5 years ago
Daniel Brewer
★ 1.9k
0
votes
7
replies
2.0k
views
simpleaffy error
simpleaffy
simpleaffy
19.8 years ago
kfbargad@lg.ehu.es
▴ 260
1
vote
9
replies
2.6k
views
RUV: removing unwanted variation in RNA-seq
RUV
ruvseq
rnaseq
9.0 years ago
sergio.espeso-gil
• 0
0
votes
8
replies
1.7k
views
Problem creating a contrast matrix
updated 16.8 years ago by
James W. MacDonald
65k • written 16.8 years ago by
Siarhei Manakou
▴ 100
0
votes
6
replies
1.3k
views
AnnBuilder failing Taffy examples
AnnBuilder
AnnBuilder
21.8 years ago
Barry Henderson
▴ 250
8
votes
14
replies
11k
views
Using msa msaPrettyPrint(): saving multiple alignement fasta file
msa
msaprettyprint()
fasta
updated 6.9 years ago by
tongtong.wang1210
• 0 • written 7.3 years ago by
Olorin
▴ 50
0
votes
7
replies
1.4k
views
[Bioc-sig-seq] ChIPpeakAnno annotatePeakInBatch function
Annotation
GO
BSgenome
BSgenome
ChIPpeakAnno
Annotation
GO
BSgenome
BSgenome
ChIPpeakAnno
updated 14.2 years ago by
Ivan Gregoretti
▴ 310 • written 14.2 years ago by
Julie Zhu
★ 4.3k
0
votes
6
replies
2.1k
views
spillover::flowCore problem: Error in match(unstained, sampleNames(x))
flowcore
spillover
flowcytometry
updated 6.2 years ago by
Samuel Ahuno
• 0 • written 8.2 years ago by
Daniel Prieto
• 0
3
votes
10
replies
4.5k
views
ChIPseeker question: enrichPeakOverlap to find enrichment of genomic annotations in peaks from GRanges
chipseeker
updated 8.5 years ago by
Guangchuang Yu
★ 1.2k • written 8.6 years ago by
francesca casalino
▴ 50
0
votes
7
replies
2.0k
views
analyzing HumanHT12 with lumi
Microarray
Normalization
probe
lumi
Microarray
Normalization
probe
lumi
updated 14.6 years ago by
die_stevie@web.de
▴ 50 • written 14.7 years ago by
Stefanie Figura
▴ 30
0
votes
9
replies
1.5k
views
Problem with ArrayQuality Package version 1.12
updated 16.8 years ago by
Paquet, Agnes
▴ 500 • written 16.8 years ago by
Peter White
▴ 80
0
votes
10
replies
2.5k
views
Protein/peptide mass
18.0 years ago • updated 17.9 years ago
john seers IFR
▴ 810
0
votes
7
replies
1.8k
views
Limma and time-course data
limma
limma
updated 18.2 years ago by
Gordon Smyth
50k • written 18.2 years ago by
michael watson IAH-C
★ 3.4k
0
votes
8
replies
1.9k
views
Biological replication (was RNA degradation problem)
Normalization
probe
affy
affyPLM
Normalization
probe
affy
affyPLM
18.3 years ago
Naomi Altman
★ 6.0k
0
votes
7
replies
1.0k
views
Statistics for Diagnostic Microarrays
updated 19.8 years ago by
A.J. Rossini
▴ 810 • written 19.8 years ago by
michael watson IAH-C
★ 3.4k
0
votes
8
replies
2.0k
views
AnnBuilder and Kegg
Pathways
GO
Survival
Cancer
Organism
annotate
affydata
vsn
AnnBuilder
globaltest
GO
vsn
updated 17.5 years ago by
David Lapointe
▴ 190 • written 17.5 years ago by
John Zhang
★ 2.9k
0
votes
12
replies
1.9k
views
agi4x44kpreprocess package
updated 15.2 years ago by
Pedro López Romero
▴ 360 • written 15.2 years ago by
Erika Melissari
▴ 250
8
votes
16
replies
2.7k
views
Setting package name in makeTxDbPackage
genomicfeatures
txdb
updated 9.0 years ago by
Marc Carlson
★ 7.2k • written 9.0 years ago by
Diego Diez
▴ 760
5
votes
11
replies
2.1k
views
ChIPQC Error in .Call2 NCList object is too deep
ChIPQC
updated 6.5 years ago by
Thomas Carroll
▴ 420 • written 6.5 years ago by
Victor Goitea
▴ 10
2
votes
7
replies
2.7k
views
SomaticSignatures, cannot reproduce use case
somaticsignatures
'IRanges
9.5 years ago
Anna N.
• 0
5
votes
15
replies
2.6k
views
Rqc for RNA-Seq data
Rqc
8.2 years ago
kritikamish99
▴ 10
21
votes
24
replies
13k
views
Problem with biomart's listMarts function
biomart
bug
updated 8.0 years ago by
Paul Shannon
▴ 470 • written 8.5 years ago by
Johannes Rainer
★ 2.0k
0
votes
6
replies
1.4k
views
Reading Imagene files with read.imagene in limma
updated 19.9 years ago by
Gordon Smyth
50k • written 19.9 years ago by
STKH Steen Krogsgaard
▴ 150
1,000 results • Page
2 of 20
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Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Comment: Store output of matchPWM()
by
James W. MacDonald
65k
Here's a self contained reproducible example, using part of the example in `?matchPWM` ``` > library(Biostrings) > data(HNF4alpha) > libr…
Comment: DEseq2 coefficient
by
JKim
• 0
Hi Dr. Love, I'm sorry to ask another question to my old post. If the design isn't balanced, the interpretation of coefficients will be…
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
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