Showing : plier • reset
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Affymetrix gene st array - ok to do statistics on Category:Main only?
limma plier oligo limma plier oligo
12.7 years ago Martin O'Hare ▴ 10
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FARMS package (fwd)
Microarray Normalization cdf plier farms Microarray Normalization cdf plier farms
12.8 years ago Günter Klambauer ▴ 540
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plier package
Normalization cdf plier Normalization cdf plier
12.8 years ago fire1976 wyoming ▴ 380
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XPS package working with Affymetrix GeneChip 1.0 ST at gene level
cdf affy plier xps cdf affy plier xps
12.9 years ago cstrato ★ 3.9k
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No changes between Groups using GeneST Arrays from Affymetrix
GO vsn plier GO vsn plier
updated 15.0 years ago by ▴ 230 • written 15.0 years ago by ▴ 830
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1
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1.5k
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Prokaryotic_Rhodobacter capsulatus GEP
Epigenetics cdf affy makecdfenv plier affxparser preprocessCore Epigenetics cdf affy
updated 16.4 years ago by ▴ 140 • written 16.4 years ago by 68k
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2
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Prokaryotic_Rhodobacter capsulatus GEP
cdf plier cdf plier
updated 16.4 years ago by 25k • written 16.4 years ago by ▴ 140
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1
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1.3k
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Normalization Recommendations- severe biological variation (from the digest)
Normalization vsn plier Normalization vsn plier
updated 16.9 years ago by ★ 6.0k • written 16.9 years ago by ▴ 20
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3
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Standard error in summarization ExpressionSets
plier plier
updated 16.9 years ago by 68k • written 16.9 years ago by ▴ 10
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plier using reference set normalization
Normalization plier RefPlus Normalization plier RefPlus
17.2 years ago Roumyana Yordanova ▴ 110
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3
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1.4k
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RMA, d-chip and Plier for new chip type Human/Mouse/Rat Gene
plier plier
updated 17.2 years ago by ★ 2.4k • written 17.2 years ago by ▴ 30
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problem with function to interrogate x:Map (exonmap)
Survival genefilter affy plier affyio exonmap Survival genefilter affy plier affyio
17.6 years ago Wolfgang Raffelsberger ▴ 160
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4
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problems rma() with mouse exon affy data in exonmap package
Survival cdf genefilter affy simpleaffy plier exonmap Survival cdf genefilter affy
updated 17.7 years ago by 68k • written 17.7 years ago by ▴ 20
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Exonmap mapping problems
Survival genefilter affy plier affyio exonmap Survival genefilter affy plier affyio
updated 17.7 years ago by ▴ 120 • written 17.7 years ago by ▴ 10
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justPlier() on UNIX
plier plier
17.9 years ago Pickard, Mike ▴ 10
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6
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1.7k
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Affy EXON Array: iterPLIER or RMA
Cancer plier Cancer plier
updated 18.0 years ago by 68k • written 18.0 years ago by ★ 1.9k
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annaffy errors
GO Survival mgu74av2 cdf annotate affy limma gcrma matchprobes annaffy simpleaffy plier
updated 18.3 years ago by 68k • written 18.2 years ago by ▴ 320
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questions on BioC's implementation of plier
Normalization plier Normalization plier
18.3 years ago Jenny Drnevich ★ 2.2k
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results of justPlier vs. RMA
Clustering affy plier affyio Clustering affy plier affyio
updated 18.5 years ago by ▴ 120 • written 18.5 years ago by ▴ 360
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1
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1.0k
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Mismatch probe handling for exon arrays
Cancer Breast probe affy plier Cancer Breast probe affy plier
updated 18.6 years ago by 68k • written 18.6 years ago by ▴ 310
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2
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plier error
plier plier
updated 18.7 years ago by ★ 1.1k • written 18.7 years ago by ▴ 360
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829
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help with justPlier
plier plier
18.7 years ago He, Yiwen NIH/CIT ▴ 360
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8
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2.3k
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error message in gcrma
cdf affy gcrma matchprobes plier cdf affy gcrma matchprobes plier
updated 18.9 years ago by ★ 7.4k • written 18.9 years ago by ▴ 520
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2
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906
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Affymetrix question
plier plier
updated 19.5 years ago by 68k • written 19.5 years ago by ▴ 50
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5
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1.7k
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PLIER affinities redux
cdf probe Biobase affy plier cdf probe Biobase affy plier
updated 19.5 years ago by ★ 1.1k • written 19.5 years ago by ▴ 60
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1.0k
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PLIER affinities redux
ath1121501 cdf probe Biobase affy plier ath1121501 cdf probe Biobase affy plier
19.5 years ago Matthew Hannah ▴ 940
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PLIER affinities
rae230a cdf probe reposTools affy plier rae230a cdf probe reposTools affy plier
updated 19.5 years ago by 68k • written 19.6 years ago by ▴ 80
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902
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Problems with justGCRMA: Error in bg.adjust.fullmodel
vsn gcrma matchprobes plier vsn gcrma matchprobes plier
updated 19.7 years ago by 68k • written 19.7 years ago by ▴ 350
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NA values
Normalization Cancer limma gcrma affyPLM limmaGUI plier Normalization Cancer limma gcrma
19.8 years ago Brooke-Powell, Elizabeth ▴ 170
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1.2k
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PLIER: two questions
plier plier
updated 19.8 years ago by ★ 1.8k • written 19.8 years ago by ▴ 380
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3
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1.3k
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Anyone get plier to install on OS X?
plier plier
19.9 years ago Ken Termiso ▴ 250
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1
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881
views
PLIER -- low values?
Microarray plier Microarray plier
updated 19.9 years ago by 68k • written 19.9 years ago by ▴ 190
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1
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1.0k
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plier crashes with 51 CEL files
gcrma PROcess plier gcrma PROcess plier
20.1 years ago Adaikalavan Ramasamy ★ 1.8k
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755
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Re:PLIER wierd Mvs A
plier plier
20.2 years ago Anthony Bosco ▴ 20
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1
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1.2k
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PLIER Error
plier plier
updated 20.2 years ago by ★ 1.1k • written 20.2 years ago by ▴ 500
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PLIER
plier plier
20.2 years ago Crispin Miller ★ 1.1k
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MAS5+32, PLIER+16 alorithms reported in affycomp
Normalization probe affycomp plier Normalization probe affycomp plier
20.2 years ago Ariel Chernomoretz ▴ 380
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2
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1.1k
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Affy PLIER
plier plier
updated 20.5 years ago by ★ 2.3k • written 20.5 years ago by ★ 1.4k
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1.3k
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PLIER is available as open source
plier SANTA plier SANTA
updated 20.6 years ago by ▴ 50 • written 20.6 years ago by ▴ 50
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3
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3.0k
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what normalization method does mas5 use
Normalization GO affy gcrma plier Normalization GO affy gcrma plier
updated 20.8 years ago by ▴ 100 • written 20.8 years ago by ▴ 10
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Question regarding bg correction/normalization/summarization
Normalization Cancer probe affy vsn plier Normalization Cancer probe affy vsn plier
20.8 years ago Wolfgang Huber ★ 13k
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2
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1.1k
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Running justRMA on .CEL files in another directory
plier plier
updated 20.9 years ago by ▴ 70 • written 20.9 years ago by ▴ 50
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1.3k
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median polish vs mas/PLIER info
Microarray Normalization Cancer probe affy GeneSpring PROcess plier Microarray Cancer
21.0 years ago Anthony Bosco ▴ 500
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1
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1.1k
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AFFY PLIER ALGORITHM
plier plier
21.1 years ago Anthony Bosco ▴ 500
44 results • Page 1 of 1
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Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0
This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/
Comment: Filtering after DESeq by ATpoint ★ 4.8k
The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …
Comment: GSEA preranked analysis downstream of DEseq2 by ATpoint ★ 4.8k
All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…
Comment: Check removeBatchEffect effectiveness by ATpoint ★ 4.8k
> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…
Answer: Check removeBatchEffect effectiveness by Gordon Smyth 52k
Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…
Votes
Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
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