Showing : SANTA • reset
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limma technical replicates and biological replicates in same design
limma SANTA
16.2 years ago • updated 6.5 years ago Gordon Smyth 53k
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limma technical replicates and biological replicates in the same design
limma SANTA limma SANTA
updated 6.5 years ago by 53k • written 16.2 years ago by ▴ 450
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FOSBE 2012
SANTA SANTA
13.6 years ago mabawsa ▴ 20
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Selected probes from a given probeset
Microarray SANTA Microarray SANTA
13.6 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
14.2 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
14.3 years ago stefano iacus ▴ 430
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question on makeTranscriptDbFromUCSC
Cancer rtracklayer GenomicRanges PING SANTA Cancer rtracklayer GenomicRanges PING SANTA
updated 15.5 years ago by ▴ 10 • written 15.5 years ago by 16k
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limma technical replicates and biological replicates in the same design
limma SANTA limma SANTA
16.2 years ago Naomi Altman ★ 6.0k
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Bioconductor Digest, Vol 79, Issue 20
Annotation limma SANTA Annotation limma SANTA
16.2 years ago Gordon Smyth 53k
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OFF TOPIC high-density SSU rRNA microarray
Microarray SANTA Microarray SANTA
16.2 years ago Marcelo Laia ▴ 450
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[limma] Possible bug on read.maimages function ?
Annotation limma SANTA Annotation limma SANTA
16.2 years ago Marcelo Laia ▴ 450
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help needed on avereps function
Normalization probe limma SANTA Normalization probe limma SANTA
updated 16.5 years ago by ▴ 250 • written 16.5 years ago by ★ 1.3k
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limma Time Course Experiments question
graph limma SANTA graph limma SANTA
16.7 years ago Marcelo Laia ▴ 450
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Expressionset from ArrayExpress processed data
ArrayExpress SANTA ArrayExpress SANTA
updated 16.9 years ago by 25k • written 16.9 years ago by ▴ 20
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Job: Statistical Analyst - Affymetrix, Inc.
Microarray Genetics Classification SANTA Microarray Genetics Classification SANTA
20.7 years ago Higgs, Debi ▴ 10
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Affymetrix file parsers released under LGPL open source license
SANTA SANTA
updated 21.0 years ago by ▴ 60 • written 21.0 years ago by ▴ 50
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PLIER is available as open source
plier SANTA plier SANTA
updated 21.2 years ago by ▴ 50 • written 21.2 years ago by ▴ 50
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Affymetrix Postdoctoral Opportunity
Microarray SANTA Microarray SANTA
22.0 years ago VanLieu, Connie ▴ 10
18 results • Page 1 of 1
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Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
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 …
Votes
C: DESeq2 Following RSEM
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
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