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2
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757
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NCBI protein conversion to CDNA and NCBI gene (in R)
convert
updated 16 months ago by 68k • written 16 months ago by • 0
1
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Pan-organism OrgDb database, Accession number translated to organism name in R
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updated 17 months ago by 68k • written 17 months ago by • 0
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Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
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updated 6 months ago by • 0 • written 17 months ago by • 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 21 months ago by 68k • written 21 months ago by • 0
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How to convert Illumina HT_12_v4 annotation
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updated 2.4 years ago by ▴ 200 • written 7.4 years ago by • 0
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3.9 years ago nicocillari • 0
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getLDS error in scan
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updated 4.5 years ago by ★ 6.6k • written 4.5 years ago by • 0
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Can XCMS output continuum/profile data to netCDF format?
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To convert MAList to ExpressionSet using R package 'convert'
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updated 8.4 years ago by 52k • written 8.5 years ago by • 0
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How to reverse translate amino acid sequence into mammalian codon optimised cDNA
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converting amino-acid one letter code into cDNA sequene
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8.9 years ago arvind90.psc • 0
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making ExpressionSet from RGList via NChannelSet for use with 'sva'
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updated 9.1 years ago by 52k • written 9.1 years ago by • 0
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minfi, bumphunter + complex experimental design, and 3 other 450K queries
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updated 9.3 years ago by ▴ 30 • written 10.9 years ago by ★ 4.1k
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Error of GDS2eSet() function
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updated 9.3 years ago by 68k • written 9.3 years ago by • 0
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updated 9.5 years ago by • 0 • written 11.2 years ago by ★ 6.5k
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How to convert codominant Microsatellite two column data into illumina AB format?
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9.5 years ago parka • 0
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3
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How to combine expression values of multiple probes for one gene
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updated 9.8 years ago by ▴ 840 • written 9.8 years ago by ▴ 10
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[ReportingTools] HTMLReport of DESeq2 results using Ensembl Gene Ids
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updated 10.3 years ago by ▴ 370 • written 11.4 years ago by ▴ 160
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Metagenomic analysis: Aligning ChIPseq data on TSS
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10.6 years ago patrick.schordert ▴ 30
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Converting .gpr files to .csv files
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updated 10.6 years ago by 68k • written 10.6 years ago by ★ 13k
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Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
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narrow and xstringset
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ShortReadQ and conversion of quality scores to characters
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updated 10.8 years ago by 25k • written 10.8 years ago by ▴ 310
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updated 10.8 years ago by ★ 1.3k • written 10.8 years ago by ▴ 90
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converting probeset id to gene id's : fRMA
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updated 10.8 years ago by ★ 3.0k • written 10.9 years ago by ▴ 190
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Approaches to building Rle sequences from ranges
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updated 10.9 years ago by ▴ 90 • written 10.9 years ago by ▴ 40
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updated 10.9 years ago by ★ 11k • written 10.9 years ago by ▴ 10
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GenomicAlignments and QNAME collision
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updated 10.9 years ago by ▴ 90 • written 10.9 years ago by ★ 6.8k
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error on loading ratioConvert() in minfi
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updated 10.9 years ago by ★ 6.5k • written 10.9 years ago by ★ 13k
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Mapping gene symbols to gene names (org.Hs.eg.db?)
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updated 11.0 years ago by 68k • written 11.0 years ago by ★ 1.1k
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viewApply drops feature names; transfer names between lists
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updated 11.0 years ago by 68k • written 11.0 years ago by ★ 1.5k
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summarizeOverlaps using GRanges or bed file as reads?
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updated 11.0 years ago by 25k • written 11.0 years ago by ★ 7.9k
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BiomaRt getBM error: Unknown column
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A question about the function readGAlignmentPairs in GenomicRnages package
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updated 11.1 years ago by 16k • written 11.1 years ago by ▴ 50
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CellMix package use with own data matrix
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crlmm problem
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DMR identification: minfi speed, memory problems
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11.2 years ago Allegra Petti ▴ 120
0
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methyAnalysis for DMR identification
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updated 11.2 years ago by ▴ 160 • written 11.2 years ago by ★ 13k
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DMR identification: minfi speed, memory problems
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updated 11.2 years ago by 68k • written 11.2 years ago by ★ 13k
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Tigre Package question 3
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updated 11.2 years ago by ▴ 60 • written 11.2 years ago by ▴ 50
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Minfi "mapToGenome" error when attempting to generate a genomicRatioSet
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updated 11.2 years ago by ★ 6.5k • written 11.2 years ago by ▴ 30
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Using GOstats with ScanArray Express Data
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updated 11.2 years ago by ★ 13k • written 11.2 years ago by ★ 13k
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ChIPpeakAnno: TSS at - strand
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50 results • Page 1 of 1
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Comment: Differing results with DESeq2 by JKim • 0
My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…
Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k
This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…
Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80
Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…
Answer: Analyzing TnSeq data with DESeq2 by cold.wolverine.arku • 0
That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…
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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?
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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