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CRISPRseek: searchHits() optimization
Preprocessing BSgenome safe BSgenome CRISPRseek Preprocessing BSgenome safe BSgenome
11.1 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 11.7 years ago by ▴ 570 • written 11.7 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 11.7 years ago by ▴ 570 • written 11.7 years ago by ▴ 220
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GWASTools suggestions: explicit interface for GenotypeReaders,
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updated 11.7 years ago by ▴ 890 • written 11.7 years ago by ▴ 70
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SAM for protemics - low q values
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12.0 years ago Hendrik Nolte ▴ 10
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4
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1.8k
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DEXSeq on two-exon genes: how to specify a formula without redundant terms
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12.3 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
12.6 years ago Peter Glaus ▴ 70
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Log transformation and left censoring
limma safe edgeR limma safe edgeR
12.6 years ago Paul Harrison ▴ 110
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BitSeq: Required input for 3' bias correction on transcripts.
RNASeq safe BitSeq RNASeq safe BitSeq
12.6 years ago Dave Gerrard ▴ 40
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2
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1.8k
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frma for Nimblegen arrays?
Microarray Annotation Normalization affy PROcess safe frma frmaTools Microarray affy
updated 12.8 years ago by ★ 4.3k • written 12.8 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 12.8 years ago by ▴ 600 • written 12.8 years ago by ▴ 870
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0
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SCAN UPC probability - validation of gene expression results using UPC
hgu133a2 safe hgu133a2 safe
12.8 years ago Guest User ★ 13k
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5
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1.8k
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frma for Nimblegen arrays?
Microarray Normalization affy PROcess safe frma Microarray Normalization affy PROcess
updated 12.9 years ago by ▴ 830 • written 12.9 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
13.2 years ago Josef Spidlen ▴ 140
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0
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1.4k
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dbSNP strand information
SNPlocs safe SNPlocs safe
13.5 years ago Alex Gutteridge ▴ 650
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3
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1.8k
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Strand information for dbSNP packages
SNPlocs safe SNPlocs safe
updated 13.5 years ago by ★ 6.8k • written 13.5 years ago by ▴ 650
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0
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Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
safe BiocInstaller safe BiocInstaller
13.8 years ago Firas Swidan ▴ 50
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Fwd: Re: Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
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13.8 years ago Andrea Grilli ▴ 240
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7
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Installing Bioconductor packages on R 2.14.0 *without* administrator rights / from a script
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updated 13.8 years ago by ★ 8.2k • written 13.8 years ago by ▴ 50
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1
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Can't reproduce assessment data included in affycomp package
Cancer affy affycomp PROcess safe Cancer affy affycomp PROcess safe
updated 14.2 years ago by ▴ 590 • written 14.2 years ago by ★ 2.3k
0
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5
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2.0k
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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 14.4 years ago by ★ 3.6k • written 14.4 years ago by ▴ 220
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0
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1.2k
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Can't reproduce assessment data included in affycomp package
Cancer affy affycomp PROcess safe Cancer affy affycomp PROcess safe
14.4 years ago Harris A. Jaffee ▴ 590
0
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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
14.4 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 14.4 years ago by ★ 3.6k • written 14.4 years ago by ▴ 220
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4
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5.1k
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Bioconductor with Affymetrix Mouse Gene 1.0 ST
Annotation cdf PROcess safe Annotation cdf PROcess safe
14.5 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 14.8 years ago by ★ 3.9k • written 14.8 years ago by ★ 8.2k
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823
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Now you can smoke anywhere you want!
Cancer safe Cancer safe
16.0 years ago inLife E-Cigarettes ▴ 10
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848
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You Don't Have to Quit Smoking. New Technology!
Cancer safe Cancer safe
16.0 years ago inLife E-Cigarettes ▴ 10
0
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0
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950
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biomaRt - current devel version of biomaRt+RCurl don't work
biomaRt safe biomaRt safe
16.3 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
16.4 years ago Ben Madin ▴ 20
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2
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1.2k
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RdbiPgSQL problem: SET_VECTOR_ELT() can only be applied to a 'list', not a 'character'
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updated 16.4 years ago by 16k • written 16.4 years ago by ▴ 20
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0
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865
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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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16.8 years ago Anisa Gracie ▴ 10
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1
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2.2k
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Important information (Discover The Ways That We Protect Your Online Access)
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17.2 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 17.7 years ago by ▴ 410 • written 17.7 years ago by ▴ 150
0
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1
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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 18.8 years ago by ▴ 900 • written 18.8 years ago by 25k
0
votes
2
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1.9k
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BH vs BY in p.adjust
Coverage limma safe Coverage limma safe
updated 19.1 years ago by ★ 13k • written 19.1 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 19.2 years ago by ▴ 870 • written 19.2 years ago by ▴ 60
0
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1
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1.4k
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limma 3-way interaction
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19.3 years ago Jacob Michaelson ▴ 320
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6
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1.5k
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Limma: background correction. Use or ignore?
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updated 19.4 years ago by ★ 2.4k • written 19.5 years ago by ★ 1.9k
0
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2
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1.5k
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GeneSpring can call R functions?
GO GeneSpring safe GO GeneSpring safe
updated 20.3 years ago by ★ 1.1k • written 20.3 years ago by ▴ 250
0
votes
2
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1.4k
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trouble with yeastann function in AnnBuilder
Annotation Yeast probe AnnBuilder safe Annotation Yeast probe AnnBuilder safe
updated 20.6 years ago by ▴ 10 • written 20.6 years ago by ▴ 320
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2
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1.7k
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Bioconductor data sets - Unigene IDs
probe safe probe safe
updated 23.0 years ago by ★ 2.3k • written 23.0 years ago by ★ 13k
42 results • Page 1 of 1
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Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k
I moved your post from an "answer" to a "comment". I don't know about `offst()` function, what is the scale or direction, or whether you a…
Comment: Average biological replicates in RNA-seq by boczniak767 ▴ 740
@atpoint Should I first standardise data and then average replicates?
Comment: 3-factor DESeq2 trime-series analysis by gogeni5529 • 0
Thans you @swbarnes2 for the answer. I can see why trying to include all three parameters might be difficult to interpret. But we're inte…
Comment: 3-factor DESeq2 trime-series analysis by swbarnes2 ★ 1.4k
What does your PCA look like? A lot of times, I find that different cell lines are so different from each other, that they should not be d…
Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by yongjie.wang • 0
Thanks for your reply. " normFactors <- exp(-1 * offst(set2)) normFactors <- normFactors / exp(rowMeans(log(normFactors))) normalizat…
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Answer: Limpa Pipeline Order
A: How barcode-plot enrichment is calculated?
A: How barcode-plot enrichment is calculated?
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
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