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Bioconductor with Affymetrix Mouse Gene 1.0 ST
Annotation
cdf
PROcess
safe
Annotation
cdf
PROcess
safe
13.1 years ago
M. Emily Merrill
▴ 20
0
votes
7
replies
2.5k
views
Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe
safe
updated 12.4 years ago by
Dan Tenenbaum
★ 8.2k • written 12.4 years ago by
Firas Swidan
▴ 50
0
votes
1
reply
2.0k
views
Important information (Discover The Ways That We Protect Your Online Access)
safe
safe
15.9 years ago
�2008 HALIFAX SECURITY
▴ 20
0
votes
6
replies
1.7k
views
separate MEDIPS.createSet required for each replicate? RE: using custom BSgenome with MEDIPS
Alignment
BSgenome
safe
BSgenome
MEDIPS
Alignment
BSgenome
safe
BSgenome
MEDIPS
updated 10.4 years ago by
Lukas Chavez
▴ 570 • written 10.4 years ago by
Vining, Kelly
▴ 220
0
votes
2
replies
1.6k
views
BH vs BY in p.adjust
Coverage
limma
safe
Coverage
limma
safe
updated 17.8 years ago by
Wolfgang Huber
★ 13k • written 17.8 years ago by
lemerle@embl.de
▴ 50
0
votes
5
replies
1.5k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization
probe
limma
safe
ArrayExpress
Normalization
probe
limma
safe
ArrayExpress
updated 13.0 years ago by
Wei Shi
★ 3.6k • written 13.0 years ago by
Gavin Koh
▴ 220
0
votes
1
reply
1.5k
views
Combining data from different versions of Illumina HumanHT-12 v3
Normalization
probe
safe
ArrayExpress
Normalization
probe
safe
ArrayExpress
updated 13.0 years ago by
Wei Shi
★ 3.6k • written 13.0 years ago by
Gavin Koh
▴ 220
0
votes
2
replies
1.5k
views
Aha: different error may be a clue: RE: separate MEDIPS.createSet required for each replicate? RE: using custom BSgenome with MEDIPS
Alignment
BSgenome
safe
BSgenome
MEDIPS
Alignment
BSgenome
safe
BSgenome
MEDIPS
updated 10.4 years ago by
Lukas Chavez
▴ 570 • written 10.4 years ago by
Vining, Kelly
▴ 220
0
votes
2
replies
1.5k
views
frma for Nimblegen arrays?
Microarray
Annotation
Normalization
affy
PROcess
safe
frma
frmaTools
Microarray
affy
updated 11.5 years ago by
Benilton Carvalho
★ 4.3k • written 11.5 years ago by
wrighth
▴ 260
0
votes
3
replies
1.5k
views
Strand information for dbSNP packages
SNPlocs
safe
SNPlocs
safe
updated 12.2 years ago by
Valerie Obenchain
★ 6.8k • written 12.2 years ago by
Alex Gutteridge
▴ 650
0
votes
4
replies
1.5k
views
About beadarray normaliseIllumina() warning messages
Normalization
GO
safe
beadarray
lumi
Normalization
GO
safe
beadarray
lumi
updated 16.3 years ago by
Johnstone, Alice
▴ 410 • written 16.3 years ago by
Elliot Kleiman
▴ 150
0
votes
5
replies
1.4k
views
frma for Nimblegen arrays?
Microarray
Normalization
affy
PROcess
safe
frma
Microarray
Normalization
affy
PROcess
updated 11.5 years ago by
Matthew McCall
▴ 830 • written 11.5 years ago by
wrighth
▴ 260
0
votes
4
replies
1.4k
views
DEXSeq on two-exon genes: how to specify a formula without redundant terms
safe
DEXSeq
safe
DEXSeq
11.0 years ago • updated 10.9 years ago
Narayanan, Manikandan NIH/NIAID [E]
▴ 60
0
votes
1
reply
1.4k
views
SCAN UPC probability - validation of gene expression results using UPC
hgu133a2
safe
SCAN.UPC
hgu133a2
safe
SCAN.UPC
updated 11.5 years ago by
Stephen Piccolo
▴ 590 • written 11.5 years ago by
W. Evan Johnson
▴ 850
0
votes
1
reply
1.3k
views
Can't reproduce assessment data included in affycomp package
Cancer
affy
affycomp
PROcess
safe
Cancer
affy
affycomp
PROcess
safe
updated 12.8 years ago by
Harris A. Jaffee
▴ 590 • written 12.8 years ago by
Rafael A. Irizarry
★ 2.3k
0
votes
5
replies
1.3k
views
Missing chromosomal locations in hgu133a package
hgu133a
AnnBuilder
safe
hgu133a
AnnBuilder
safe
updated 17.8 years ago by
Nianhua Li
▴ 870 • written 17.8 years ago by
Hilmar Berger
▴ 60
0
votes
1
reply
1.3k
views
[R] Why SAM has totally diffent results in R2.1.1 and R2.4.0
Microarray
Genetics
Survival
multtest
siggenes
safe
Microarray
Genetics
Survival
multtest
updated 17.4 years ago by
Holger Schwender
▴ 900 • written 17.4 years ago by
Martin Morgan
25k
0
votes
0
replies
1.3k
views
Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe
BiocInstaller
safe
BiocInstaller
12.4 years ago
Firas Swidan
▴ 50
0
votes
2
replies
1.3k
views
Bioconductor data sets - Unigene IDs
probe
safe
probe
safe
updated 21.6 years ago by
Laurent Gautier
★ 2.3k • written 21.6 years ago by
Wolfgang Huber
★ 13k
0
votes
0
replies
1.2k
views
dbSNP strand information
SNPlocs
safe
SNPlocs
safe
12.2 years ago
Alex Gutteridge
▴ 650
0
votes
2
replies
1.2k
views
GeneSpring can call R functions?
GO
GeneSpring
safe
GO
GeneSpring
safe
updated 19.0 years ago by
Ramon Diaz
★ 1.1k • written 19.0 years ago by
Ken Termiso
▴ 250
0
votes
6
replies
1.1k
views
Limma: background correction. Use or ignore?
safe
safe
updated 18.1 years ago by
Henrik Bengtsson
★ 2.4k • written 18.1 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k
0
votes
0
replies
1.1k
views
flowCore 1.22.0 broken for some FCS files
Cancer
safe
flowCore
Cancer
safe
flowCore
11.9 years ago
Josef Spidlen
▴ 140
0
votes
0
replies
1.1k
views
BitSeq: Required input for 3' bias correction on transcripts.
Transcription
RNASeq
safe
BitSeq
Transcription
RNASeq
safe
BitSeq
11.2 years ago
Peter Glaus
▴ 70
0
votes
3
replies
1.1k
views
Package xps - Problem accessing README file
safe
xps
safe
xps
updated 13.4 years ago by
cstrato
★ 3.9k • written 13.4 years ago by
Dan Tenenbaum
★ 8.2k
0
votes
0
replies
1.1k
views
CRISPRseek: searchHits() optimization
Preprocessing
BSgenome
safe
BSgenome
CRISPRseek
Preprocessing
BSgenome
safe
BSgenome
9.7 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.1k
views
trouble with yeastann function in AnnBuilder
Annotation
Yeast
probe
AnnBuilder
safe
Annotation
Yeast
probe
AnnBuilder
safe
updated 19.2 years ago by
John Zhang
▴ 10 • written 19.2 years ago by
Jacob Michaelson
▴ 320
0
votes
1
reply
1.0k
views
limma 3-way interaction
safe
safe
18.0 years ago
Jacob Michaelson
▴ 320
0
votes
0
replies
1.0k
views
BitSeq: Required input for 3' bias correction on transcripts.
RNASeq
safe
BitSeq
RNASeq
safe
BitSeq
11.2 years ago
Dave Gerrard
▴ 40
0
votes
0
replies
1.0k
views
Can't reproduce assessment data included in affycomp package
Cancer
affy
affycomp
PROcess
safe
Cancer
affy
affycomp
PROcess
safe
13.0 years ago
Harris A. Jaffee
▴ 590
0
votes
1
reply
956
views
GWASTools suggestions: explicit interface for GenotypeReaders,
safe
safe
updated 10.4 years ago by
Stephanie M. Gogarten
▴ 870 • written 10.4 years ago by
Karl Forner
▴ 70
0
votes
0
replies
923
views
Fwd: Re: Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe
safe
12.4 years ago
Andrea Grilli
▴ 240
0
votes
0
replies
918
views
SAM for protemics - low q values
safe
safe
10.6 years ago
Hendrik Nolte
▴ 10
0
votes
0
replies
916
views
Log transformation and left censoring
limma
safe
edgeR
limma
safe
edgeR
11.2 years ago
Paul Harrison
▴ 100
0
votes
2
replies
902
views
RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'
safe
safe
updated 15.0 years ago by
Hervé Pagès
16k • written 15.0 years ago by
Ben Madin
▴ 20
0
votes
0
replies
889
views
SCAN UPC probability - validation of gene expression results using UPC
hgu133a2
safe
hgu133a2
safe
11.5 years ago
Guest User
★ 13k
0
votes
0
replies
879
views
Can't reproduce assessment data included in affycomp package
Cancer
affycomp
PROcess
safe
Cancer
affycomp
PROcess
safe
13.0 years ago
Philippe Serhal
▴ 10
0
votes
0
replies
774
views
biomaRt - current devel version of biomaRt+RCurl don't work
biomaRt
safe
biomaRt
safe
14.9 years ago
Patrick Aboyoun
★ 1.6k
0
votes
0
replies
771
views
RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'
Cancer
RdbiPgSQL
safe
Cancer
RdbiPgSQL
safe
15.0 years ago
Ben Madin
▴ 20
0
votes
0
replies
666
views
Now you can smoke anywhere you want!
Cancer
safe
Cancer
safe
14.6 years ago
inLife E-Cigarettes
▴ 10
0
votes
0
replies
654
views
You Don't Have to Quit Smoking. New Technology!
Cancer
safe
Cancer
safe
14.6 years ago
inLife E-Cigarettes
▴ 10
0
votes
0
replies
648
views
!SPAM: Sale Offer:- ViagraCializ Pills at LowestPrices on net! $1.31/tab, find out more ewlelk 6qu
safe
safe
15.4 years ago
Anisa Gracie
▴ 10
42 results • Page
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Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative?
by
Michael Love
41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks
by
ATpoint
★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
camp
▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
ATpoint
★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Votes
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
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