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CRISPRseek: searchHits() optimization
Preprocessing BSgenome safe BSgenome CRISPRseek Preprocessing BSgenome safe BSgenome
11.3 years ago Julie Zhu ★ 4.3k
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2
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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 12.0 years ago by ▴ 570 • written 12.0 years ago by ▴ 220
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6
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separate MEDIPS.createSet required for each replicate? RE: using custom BSgenome with MEDIPS
Alignment BSgenome safe BSgenome MEDIPS Alignment BSgenome safe BSgenome MEDIPS
updated 12.0 years ago by ▴ 570 • written 12.0 years ago by ▴ 220
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GWASTools suggestions: explicit interface for GenotypeReaders,
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updated 12.0 years ago by ▴ 890 • written 12.0 years ago by ▴ 70
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SAM for protemics - low q values
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12.2 years ago Hendrik Nolte ▴ 10
0
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4
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1.9k
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DEXSeq on two-exon genes: how to specify a formula without redundant terms
safe DEXSeq safe DEXSeq
12.6 years ago • updated 12.5 years ago Narayanan, Manikandan NIH/NIAID [E] ▴ 60
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BitSeq: Required input for 3' bias correction on transcripts.
Transcription RNASeq safe BitSeq Transcription RNASeq safe BitSeq
12.8 years ago Peter Glaus ▴ 70
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Log transformation and left censoring
limma safe edgeR limma safe edgeR
12.8 years ago Paul Harrison ▴ 110
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BitSeq: Required input for 3' bias correction on transcripts.
RNASeq safe BitSeq RNASeq safe BitSeq
12.9 years ago Dave Gerrard ▴ 40
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2
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1.9k
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frma for Nimblegen arrays?
Microarray Annotation Normalization affy PROcess safe frma frmaTools Microarray affy
updated 13.1 years ago by ★ 4.3k • written 13.1 years ago by ▴ 260
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SCAN UPC probability - validation of gene expression results using UPC
hgu133a2 safe SCAN.UPC hgu133a2 safe SCAN.UPC
updated 13.1 years ago by ▴ 600 • written 13.1 years ago by ▴ 870
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SCAN UPC probability - validation of gene expression results using UPC
hgu133a2 safe hgu133a2 safe
13.1 years ago Guest User ★ 13k
0
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5
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1.9k
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frma for Nimblegen arrays?
Microarray Normalization affy PROcess safe frma Microarray Normalization affy PROcess
updated 13.1 years ago by ▴ 830 • written 13.1 years ago by ▴ 260
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0
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1.4k
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flowCore 1.22.0 broken for some FCS files
Cancer safe flowCore Cancer safe flowCore
13.5 years ago Josef Spidlen ▴ 140
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dbSNP strand information
SNPlocs safe SNPlocs safe
13.8 years ago Alex Gutteridge ▴ 650
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3
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1.9k
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Strand information for dbSNP packages
SNPlocs safe SNPlocs safe
updated 13.8 years ago by ★ 6.8k • written 13.8 years ago by ▴ 650
0
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1.5k
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Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe BiocInstaller safe BiocInstaller
14.0 years ago Firas Swidan ▴ 50
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0
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1.2k
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Fwd: Re: Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
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14.0 years ago Andrea Grilli ▴ 240
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Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
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updated 14.0 years ago by ★ 8.2k • written 14.0 years ago by ▴ 50
0
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1
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1.7k
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Can't reproduce assessment data included in affycomp package
Cancer affy affycomp PROcess safe Cancer affy affycomp PROcess safe
updated 14.4 years ago by ▴ 590 • written 14.4 years ago by ★ 2.3k
0
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5
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2.1k
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Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe limma safe ArrayExpress Normalization probe limma safe ArrayExpress
updated 14.6 years ago by ★ 3.6k • written 14.6 years ago by ▴ 220
0
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0
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1.3k
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Can't reproduce assessment data included in affycomp package
Cancer affy affycomp PROcess safe Cancer affy affycomp PROcess safe
14.6 years ago Harris A. Jaffee ▴ 590
0
votes
0
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1.1k
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Can't reproduce assessment data included in affycomp package
Cancer affycomp PROcess safe Cancer affycomp PROcess safe
14.6 years ago Philippe Serhal ▴ 10
0
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1
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2.0k
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Combining data from different versions of Illumina HumanHT-12 v3
Normalization probe safe ArrayExpress Normalization probe safe ArrayExpress
updated 14.6 years ago by ★ 3.6k • written 14.6 years ago by ▴ 220
0
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4
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5.2k
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Bioconductor with Affymetrix Mouse Gene 1.0 ST
Annotation cdf PROcess safe Annotation cdf PROcess safe
14.7 years ago M. Emily Merrill ▴ 20
0
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3
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1.4k
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Package xps - Problem accessing README file
safe xps safe xps
updated 15.0 years ago by ★ 3.9k • written 15.0 years ago by ★ 8.2k
0
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0
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860
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Now you can smoke anywhere you want!
Cancer safe Cancer safe
16.2 years ago inLife E-Cigarettes ▴ 10
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0
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884
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You Don't Have to Quit Smoking. New Technology!
Cancer safe Cancer safe
16.3 years ago inLife E-Cigarettes ▴ 10
0
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0
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978
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biomaRt - current devel version of biomaRt+RCurl don't work
biomaRt safe biomaRt safe
16.5 years ago Patrick Aboyoun ★ 1.6k
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RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'
Cancer RdbiPgSQL safe Cancer RdbiPgSQL safe
16.6 years ago Ben Madin ▴ 20
0
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2
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1.3k
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RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'
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updated 16.6 years ago by 16k • written 16.6 years ago by ▴ 20
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0
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897
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!SPAM: Sale Offer:- ViagraCializ Pills at LowestPrices on net! $1.31/tab, find out more ewlelk 6qu
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17.0 years ago Anisa Gracie ▴ 10
0
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1
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2.3k
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Important information (Discover The Ways That We Protect Your Online Access)
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17.5 years ago �2008 HALIFAX SECURITY ▴ 20
0
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4
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2.0k
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About beadarray normaliseIllumina() warning messages
Normalization GO safe beadarray lumi Normalization GO safe beadarray lumi
updated 17.9 years ago by ▴ 410 • written 17.9 years ago by ▴ 150
0
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1
reply
1.6k
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[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 19.0 years ago by ▴ 900 • written 19.1 years ago by 25k
0
votes
2
replies
2.0k
views
BH vs BY in p.adjust
Coverage limma safe Coverage limma safe
updated 19.4 years ago by ★ 13k • written 19.4 years ago by ▴ 50
0
votes
5
replies
1.8k
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Missing chromosomal locations in hgu133a package
hgu133a AnnBuilder safe hgu133a AnnBuilder safe
updated 19.4 years ago by ▴ 870 • written 19.4 years ago by ▴ 60
0
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1
reply
1.4k
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limma 3-way interaction
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19.6 years ago Jacob Michaelson ▴ 320
0
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6
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1.5k
views
Limma: background correction. Use or ignore?
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updated 19.7 years ago by ★ 2.4k • written 19.7 years ago by ★ 1.9k
0
votes
2
replies
1.6k
views
GeneSpring can call R functions?
GO GeneSpring safe GO GeneSpring safe
updated 20.6 years ago by ★ 1.1k • written 20.6 years ago by ▴ 250
0
votes
2
replies
1.4k
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trouble with yeastann function in AnnBuilder
Annotation Yeast probe AnnBuilder safe Annotation Yeast probe AnnBuilder safe
updated 20.8 years ago by ▴ 10 • written 20.8 years ago by ▴ 320
0
votes
2
replies
1.7k
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Bioconductor data sets - Unigene IDs
probe safe probe safe
updated 23.2 years ago by ★ 2.3k • written 23.2 years ago by ★ 13k
42 results • Page 1 of 1
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Answer: PTM analysis in LIMPA by Gordon Smyth 53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
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Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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