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replies
1.1k
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CRISPRseek: searchHits() optimization
Preprocessing
BSgenome
safe
BSgenome
CRISPRseek
Preprocessing
BSgenome
safe
BSgenome
9.7 years ago
Julie Zhu
★ 4.3k
0
votes
2
replies
1.5k
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 10.3 years ago by
Lukas Chavez
▴ 570 • written 10.3 years ago by
Vining, Kelly
▴ 220
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 10.3 years ago by
Lukas Chavez
▴ 570 • written 10.3 years ago by
Vining, Kelly
▴ 220
0
votes
1
reply
933
views
GWASTools suggestions: explicit interface for GenotypeReaders,
safe
safe
updated 10.3 years ago by
Stephanie M. Gogarten
▴ 870 • written 10.3 years ago by
Karl Forner
▴ 70
0
votes
0
replies
904
views
SAM for protemics - low q values
safe
safe
10.5 years ago
Hendrik Nolte
▴ 10
0
votes
4
replies
1.4k
views
DEXSeq on two-exon genes: how to specify a formula without redundant terms
safe
DEXSeq
safe
DEXSeq
10.9 years ago
Narayanan, Manikandan NIH/NIAID [E]
▴ 60
0
votes
0
replies
1.1k
views
BitSeq: Required input for 3' bias correction on transcripts.
Transcription
RNASeq
safe
BitSeq
Transcription
RNASeq
safe
BitSeq
11.1 years ago
Peter Glaus
▴ 70
0
votes
0
replies
899
views
Log transformation and left censoring
limma
safe
edgeR
limma
safe
edgeR
11.2 years ago
Paul Harrison
▴ 100
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
2
replies
1.5k
views
frma for Nimblegen arrays?
Microarray
Annotation
Normalization
affy
PROcess
safe
frma
frmaTools
Microarray
affy
updated 11.4 years ago by
Benilton Carvalho
★ 4.3k • written 11.4 years ago by
wrighth
▴ 260
0
votes
1
reply
1.3k
views
SCAN UPC probability - validation of gene expression results using UPC
hgu133a2
safe
SCAN.UPC
hgu133a2
safe
SCAN.UPC
updated 11.4 years ago by
Stephen Piccolo
▴ 590 • written 11.4 years ago by
W. Evan Johnson
▴ 850
0
votes
0
replies
873
views
SCAN UPC probability - validation of gene expression results using UPC
hgu133a2
safe
hgu133a2
safe
11.4 years ago
Guest User
★ 13k
0
votes
5
replies
1.4k
views
frma for Nimblegen arrays?
Microarray
Normalization
affy
PROcess
safe
frma
Microarray
Normalization
affy
PROcess
updated 11.4 years ago by
Matthew McCall
▴ 830 • written 11.4 years ago by
wrighth
▴ 260
0
votes
0
replies
1.1k
views
flowCore 1.22.0 broken for some FCS files
Cancer
safe
flowCore
Cancer
safe
flowCore
11.8 years ago
Josef Spidlen
▴ 140
0
votes
0
replies
1.2k
views
dbSNP strand information
SNPlocs
safe
SNPlocs
safe
12.1 years ago
Alex Gutteridge
▴ 650
0
votes
3
replies
1.4k
views
Strand information for dbSNP packages
SNPlocs
safe
SNPlocs
safe
updated 12.1 years ago by
Valerie Obenchain
★ 6.8k • written 12.1 years ago by
Alex Gutteridge
▴ 650
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
12.3 years ago
Firas Swidan
▴ 50
0
votes
0
replies
900
views
Fwd: Re: Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe
safe
12.3 years ago
Andrea Grilli
▴ 240
0
votes
7
replies
2.5k
views
Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe
safe
updated 12.3 years ago by
Dan Tenenbaum
★ 8.2k • written 12.3 years ago by
Firas Swidan
▴ 50
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 12.7 years ago by
Harris A. Jaffee
▴ 590 • written 12.7 years ago by
Rafael A. Irizarry
★ 2.3k
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 12.9 years ago by
Wei Shi
★ 3.6k • written 12.9 years ago by
Gavin Koh
▴ 220
0
votes
0
replies
986
views
Can't reproduce assessment data included in affycomp package
Cancer
affy
affycomp
PROcess
safe
Cancer
affy
affycomp
PROcess
safe
12.9 years ago
Harris A. Jaffee
▴ 590
0
votes
0
replies
862
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
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
4
replies
4.4k
views
Bioconductor with Affymetrix Mouse Gene 1.0 ST
Annotation
cdf
PROcess
safe
Annotation
cdf
PROcess
safe
13.0 years ago
M. Emily Merrill
▴ 20
0
votes
3
replies
1.0k
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
657
views
Now you can smoke anywhere you want!
Cancer
safe
Cancer
safe
14.6 years ago
inLife E-Cigarettes
▴ 10
0
votes
0
replies
634
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
758
views
biomaRt - current devel version of biomaRt+RCurl don't work
biomaRt
safe
biomaRt
safe
14.8 years ago
Patrick Aboyoun
★ 1.6k
0
votes
0
replies
753
views
RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'
Cancer
RdbiPgSQL
safe
Cancer
RdbiPgSQL
safe
14.9 years ago
Ben Madin
▴ 20
0
votes
2
replies
883
views
RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'
safe
safe
updated 14.9 years ago by
Hervé Pagès
16k • written 14.9 years ago by
Ben Madin
▴ 20
0
votes
0
replies
632
views
!SPAM: Sale Offer:- ViagraCializ Pills at LowestPrices on net! $1.31/tab, find out more ewlelk 6qu
safe
safe
15.3 years ago
Anisa Gracie
▴ 10
0
votes
1
reply
2.0k
views
Important information (Discover The Ways That We Protect Your Online Access)
safe
safe
15.8 years ago
�2008 HALIFAX SECURITY
▴ 20
0
votes
4
replies
1.4k
views
About beadarray normaliseIllumina() warning messages
Normalization
GO
safe
beadarray
lumi
Normalization
GO
safe
beadarray
lumi
updated 16.2 years ago by
Johnstone, Alice
▴ 410 • written 16.2 years ago by
Elliot Kleiman
▴ 150
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
2
replies
1.6k
views
BH vs BY in p.adjust
Coverage
limma
safe
Coverage
limma
safe
updated 17.7 years ago by
Wolfgang Huber
★ 13k • written 17.7 years ago by
lemerle@embl.de
▴ 50
0
votes
5
replies
1.3k
views
Missing chromosomal locations in hgu133a package
hgu133a
AnnBuilder
safe
hgu133a
AnnBuilder
safe
updated 17.7 years ago by
Nianhua Li
▴ 870 • written 17.7 years ago by
Hilmar Berger
▴ 60
0
votes
1
reply
1.0k
views
limma 3-way interaction
safe
safe
17.9 years ago
Jacob Michaelson
▴ 320
0
votes
6
replies
1.1k
views
Limma: background correction. Use or ignore?
safe
safe
updated 18.0 years ago by
Henrik Bengtsson
★ 2.4k • written 18.0 years ago by
J.delasHeras@ed.ac.uk
★ 1.9k
0
votes
2
replies
1.1k
views
GeneSpring can call R functions?
GO
GeneSpring
safe
GO
GeneSpring
safe
updated 18.9 years ago by
Ramon Diaz
★ 1.1k • written 18.9 years ago by
Ken Termiso
▴ 250
0
votes
2
replies
1.0k
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
2
replies
1.2k
views
Bioconductor data sets - Unigene IDs
probe
safe
probe
safe
updated 21.5 years ago by
Laurent Gautier
★ 2.3k • written 21.5 years ago by
Wolfgang Huber
★ 13k
42 results • Page
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Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
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This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
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It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
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DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
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