Showing : santa • reset
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limma technical replicates and biological replicates in same design
limma SANTA
15.7 years ago • updated 5.9 years ago Gordon Smyth 52k
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limma technical replicates and biological replicates in the same design
limma SANTA limma SANTA
updated 5.9 years ago by 52k • written 15.7 years ago by ▴ 450
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FOSBE 2012
SANTA SANTA
13.0 years ago mabawsa ▴ 20
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Selected probes from a given probeset
Microarray SANTA Microarray SANTA
13.1 years ago Ramiro Rodríguez ▴ 30
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Bioinformatics course - October 2011 Registration is now open
Microarray Cancer biomaRt ArrayExpress genomes SANTA Microarray Cancer biomaRt genomes
13.6 years ago Claude Chelala ▴ 40
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[job] Postdoc position on the bioinfomatics of epigenetic circuits in genome programming and reprogramming at the European Institute of Oncology in M…
RNASeq ChIPSeq Epigenetics Cancer chipseq SANTA RNASeq ChIPSeq Epigenetics Cancer SANTA
13.7 years ago stefano iacus ▴ 430
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question on makeTranscriptDbFromUCSC
Cancer rtracklayer GenomicRanges PING SANTA Cancer rtracklayer GenomicRanges PING SANTA
updated 14.9 years ago by ▴ 10 • written 14.9 years ago by 16k
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limma technical replicates and biological replicates in the same design
limma SANTA limma SANTA
15.7 years ago Naomi Altman ★ 6.0k
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Bioconductor Digest, Vol 79, Issue 20
Annotation limma SANTA Annotation limma SANTA
15.7 years ago Gordon Smyth 52k
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OFF TOPIC high-density SSU rRNA microarray
Microarray SANTA Microarray SANTA
15.7 years ago Marcelo Laia ▴ 450
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[limma] Possible bug on read.maimages function ?
Annotation limma SANTA Annotation limma SANTA
15.7 years ago Marcelo Laia ▴ 450
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help needed on avereps function
Normalization probe limma SANTA Normalization probe limma SANTA
updated 15.9 years ago by ▴ 250 • written 15.9 years ago by ★ 1.3k
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limma Time Course Experiments question
graph limma SANTA graph limma SANTA
16.1 years ago Marcelo Laia ▴ 450
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Expressionset from ArrayExpress processed data
ArrayExpress SANTA ArrayExpress SANTA
updated 16.3 years ago by 25k • written 16.3 years ago by ▴ 20
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Job: Statistical Analyst - Affymetrix, Inc.
Microarray Genetics Classification SANTA Microarray Genetics Classification SANTA
20.1 years ago Higgs, Debi ▴ 10
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Affymetrix file parsers released under LGPL open source license
SANTA SANTA
updated 20.4 years ago by ▴ 60 • written 20.4 years ago by ▴ 50
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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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Affymetrix Postdoctoral Opportunity
Microarray SANTA Microarray SANTA
21.5 years ago VanLieu, Connie ▴ 10
18 results • Page 1 of 1
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Comment: Check removeBatchEffect effectiveness by Gordon Smyth 52k
Both of your matrices, `design_batcheffects` and `design_timepoint`, span the intercept term, which will cause a warning about NA coefficie…
Comment: DiffBind - question on the use of filtered or unfiltered input data by sloperun3az • 0
Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…
Comment: compute_fasta_digest does not match Salmon index hash by sloperun3az • 0
The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …
Comment: parameters of filterByExpr by Paul Harrison ▴ 110
It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…
Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 52k
voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…
Votes
Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
A: what should I do with many zero counts from Salmon quantification
Comment: parameters of filterByExpr
GAlignments Cigar to GRanges
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