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[ReportingTools] HTMLReport of DESeq2 results using Ensembl Gene Ids
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updated 9.3 years ago by ▴ 370 • written 10.4 years ago by ▴ 160
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Metagenomic analysis: Aligning ChIPseq data on TSS
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convert data in to expression set
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updated 10.9 years ago by ▴ 180 • written 10.9 years ago by ▴ 80
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updated 12.5 years ago by ★ 3.3k • written 12.5 years ago by ▴ 360
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Converting single GRanges object as per chromosome GRangeList
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updated 10.4 years ago by ★ 13k • written 10.4 years ago by ▴ 260
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getLDS error in scan
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updated 3.6 years ago by ★ 6.5k • written 3.6 years ago by • 0
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handling 12 bit tiffs in EBImage
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updated 13.9 years ago by ▴ 310 • written 13.9 years ago by ▴ 120
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Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
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6 months ago • updated 5 months ago j_denton • 0
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Using oligo or xps to read and convert RNA-seq data CEL file to txt file.
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updated 10 months ago by 65k • written 10 months ago by • 0
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Converting to official gene symbols
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updated 15.8 years ago by ▴ 20 • written 15.8 years ago by ▴ 90
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Apply non-Gaussian distribution data to limma
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updated 10.4 years ago by 65k • written 10.4 years ago by ★ 13k
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minfi, bumphunter + complex experimental design, and 3 other 450K queries
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updated 8.3 years ago by ▴ 30 • written 10.0 years ago by ★ 3.9k
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updated 12 months ago by 50k • written 5.4 years ago by ▴ 10
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Can XCMS output continuum/profile data to netCDF format?
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updated 7.4 years ago by ★ 2.0k • written 7.4 years ago by • 0
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Pan-organism OrgDb database, Accession number translated to organism name in R
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updated 5 months ago by 65k • written 5 months ago by • 0
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Mapping gene symbols to gene names (org.Hs.eg.db?)
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updated 10.0 years ago by 65k • written 10.0 years ago by ★ 1.1k
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RleList
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updated 10.4 years ago by ★ 11k • written 10.4 years ago by ▴ 20
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updated 8.3 years ago by 65k • written 8.3 years ago by • 0
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converting amino-acid one letter code into cDNA sequene
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7.9 years ago arvind90.psc • 0
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How to convert Illumina HT_12_v4 annotation
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updated 17 months ago by ▴ 20 • written 6.4 years ago by • 0
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MethyLumiSet object
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11.1 years ago Tim Triche ★ 4.2k
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GenBank RefSeq conversion
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updated 15.9 years ago by 21k • written 15.9 years ago by ▴ 150
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Rsubread for paired end SOLID sequencing
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updated 10.7 years ago by ★ 3.6k • written 10.7 years ago by ▴ 50
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making ExpressionSet from RGList via NChannelSet for use with 'sva'
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updated 8.1 years ago by 50k • written 8.2 years ago by • 0
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To convert MAList to ExpressionSet using R package 'convert'
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updated 7.5 years ago by 50k • written 7.5 years ago by • 0
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GenMAPP swissprot question / answers
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20.6 years ago Phguardiol@aol.com ▴ 720
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Re: Bioconductor Digest, Vol 6, Issue
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20.8 years ago Leslie Cope ▴ 50
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Re: how to convert expression set data into matrix data ?
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20.8 years ago Sylvia Merk ▴ 50
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voom() vs. RPKM/FPKM or otherwise normalized counts, and GC correction, when fitting models to a small number of responses (per-feature counts)
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updated 16 months ago by 50k • written 11.9 years ago by ★ 6.5k
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Re: time serie data
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20.6 years ago Nicholas Lewin-Koh ▴ 430
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How to convert Illumina ProbeIDs to nuIDs without nuID indexed annotation libraries?
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updated 15.6 years ago by ★ 1.2k • written 15.6 years ago by ▴ 150
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how to convert expression set data into matrix data ?
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updated 20.8 years ago by ▴ 920 • written 20.8 years ago by ▴ 10
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multtest question
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updated 21.1 years ago by ★ 2.3k • written 21.1 years ago by ▴ 720
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Genomicfeatures chromosome names matching
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21.3 years ago Fernando Henrique Ferraz P da Rosa ▴ 20
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question subsetting expressionSet
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updated 12.3 years ago by ▴ 550 • written 12.3 years ago by ★ 3.9k
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arrayQualityMetrics - how do I use this with an MAList object???
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updated 15.6 years ago by ▴ 680 • written 15.7 years ago by 25k
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summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
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17.7 years ago James W. MacDonald 65k
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Affy : checkSlotAssignment() Error
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21.5 years ago Sundaram, Shyam NIH/CIT ▴ 110
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RE: venn diagram
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updated 20.0 years ago by ▴ 620 • written 20.0 years ago by ▴ 20
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updated 20.2 years ago by ▴ 60 • written 20.2 years ago by ▴ 30
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10.0 years ago Luo Weijun ★ 1.6k
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fastq files
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updated 13.2 years ago by 25k • written 13.2 years ago by ▴ 860
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Re: affylmGUI
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19.9 years ago James Wettenhall ▴ 1000
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qvalues, sam, limma
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19.8 years ago s-uchida ▴ 20
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Re: [R] How to convert a vector into a list
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19.7 years ago Adaikalavan Ramasamy ★ 1.8k
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Annotate Package: How do I get the gene names and how do I write my matrix
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19.7 years ago James W. MacDonald 65k
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20.2 years ago Ben Bolstad ★ 1.1k
50 results • Page 1 of 1
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Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Hervé Pagès 16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea() by James W. MacDonald 65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea() by Chris • 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
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Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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