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0
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212
views
TFutils database
TFutils mouse gene convert
11 months ago nicocillari • 0
2
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6
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685
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getLDS error in scan
biomaRt getLDS convert gene symbols
updated 19 months ago by ★ 5.5k • written 19 months ago by • 0
1
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4
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687
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RNA-seq analysis using R
limma rnaseq convert R
updated 3.5 years ago by 45k • written 3.5 years ago by • 0
0
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3
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convert affy CEL files to data.frame??
convert convert
updated 3.7 years ago by • 0 • written 11.3 years ago by ▴ 40
1
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1
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3.2k
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How to convert Illumina HT_12_v4 annotation
convert R annotation microarray illumina human ht-12 v4
updated 4.4 years ago by ▴ 160 • written 4.4 years ago by • 0
1
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7
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1.5k
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Can XCMS output continuum/profile data to netCDF format?
xcms convert protein
updated 5.4 years ago by ★ 1.9k • written 5.4 years ago by • 0
1
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3
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899
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To convert MAList to ExpressionSet using R package 'convert'
convert
updated 5.5 years ago by 45k • written 5.5 years ago by • 0
0
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5
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4.7k
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How to reverse translate amino acid sequence into mammalian codon optimised cDNA
convert translation
updated 5.6 years ago by • 0 • written 7.5 years ago by ▴ 20
1
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1
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908
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converting amino-acid one letter code into cDNA sequene
convert aminoacid-onlettercode cDNA
5.9 years ago arvind90.psc • 0
1
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2
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1.7k
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making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase convert sva ringo arrayqualitymetrics
updated 6.2 years ago by 45k • written 6.2 years ago by • 0
1
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2
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2.5k
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minfi, bumphunter + complex experimental design, and 3 other 450K queries
GO convert minfi bumphunter GO convert minfi bumphunter
updated 6.3 years ago by ▴ 20 • written 8.0 years ago by ★ 3.2k
1
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1
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1.1k
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Error of GDS2eSet() function
convert geoquery error GDS2eSet
updated 6.4 years ago by 59k • written 6.4 years ago by • 0
0
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3
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1.4k
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Minfi "mapToGenome" error when attempting to generate a genomicRatioSet
Cancer convert minfi Cancer convert minfi
updated 6.5 years ago by • 0 • written 8.3 years ago by 6.5k
0
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0
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799
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How to convert codominant Microsatellite two column data into illumina AB format?
Microsatellite Convert recode
6.6 years ago parka • 0
0
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3
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8.9k
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How to combine expression values of multiple probes for one gene
probe convert geneexpression onechannelgui
updated 6.8 years ago by ▴ 780 • written 6.8 years ago by ▴ 10
6
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2.5k
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[ReportingTools] HTMLReport of DESeq2 results using Ensembl Gene Ids
Sequencing Annotation convert biomaRt ReportingTools DESeq2 Sequencing Annotation convert
updated 7.4 years ago by ▴ 360 • written 8.4 years ago by ▴ 160
5
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1.4k
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Metagenomic analysis: Aligning ChIPseq data on TSS
metagenomics chipseq biomart shortread convert biomaRt
7.7 years ago patrick.schordert ▴ 30
0
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1
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1.4k
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Converting .gpr files to .csv files
Microarray GO convert
updated 7.7 years ago by 59k • written 7.7 years ago by ★ 12k
0
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5
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1.8k
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Motif enrichment analysis: Error in transfac format and background frequencies from BSGenome
BSgenome convert BSgenome PWMEnrich MotifDb
updated 7.7 years ago by ▴ 80 • written 7.7 years ago by ▴ 50
0
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0
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977
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ChIPpeakAnno
SNP Annotation annotate convert SNP Annotation annotate convert
7.7 years ago Julie Zhu ★ 4.3k
0
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1
reply
1.5k
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narrow and xstringset
convert convert
updated 7.8 years ago by ★ 6.7k • written 7.8 years ago by ▴ 680
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2
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2.1k
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Biomart annotation
annotate convert annotate convert
updated 7.8 years ago by ▴ 180 • written 7.8 years ago by ▴ 40
0
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2
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1.2k
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ShortReadQ and conversion of quality scores to characters
convert convert
updated 7.9 years ago by 25k • written 7.9 years ago by ▴ 310
0
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1
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1.4k
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SomaticSignatures
Annotation Cancer convert Annotation Cancer convert
updated 7.9 years ago by ★ 1.3k • written 7.9 years ago by ▴ 90
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6
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converting probeset id to gene id's : fRMA
probe affy convert frma probe affy convert frma
updated 7.9 years ago by ★ 2.6k • written 7.9 years ago by ▴ 170
0
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7
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965
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Approaches to building Rle sequences from ranges
GO convert GO convert
updated 8.0 years ago by ▴ 90 • written 8.0 years ago by ▴ 40
0
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2
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1.7k
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GRanges - coercion from dataframe
convert convert
updated 8.0 years ago by 11k • written 8.0 years ago by ▴ 10
0
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4
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939
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GenomicAlignments and QNAME collision
RNASeq Cancer convert Rsamtools GenomicAlignments RNASeq Cancer convert Rsamtools
updated 8.0 years ago by ▴ 90 • written 8.0 years ago by ★ 6.7k
0
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4
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923
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error on loading ratioConvert() in minfi
convert minfi convert minfi
updated 8.0 years ago by 6.5k • written 8.0 years ago by ★ 12k
1
vote
2
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10k
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Mapping gene symbols to gene names (org.Hs.eg.db?)
convert convert
updated 8.0 years ago by 59k • written 8.0 years ago by ★ 1.1k
0
votes
0
replies
759
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viewApply drops feature names; transfer names between lists
Coverage convert Coverage convert
8.0 years ago Chris Seidel ▴ 80
0
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0
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1.6k
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Pathview question
Network convert pathview Network convert pathview
8.1 years ago Luo Weijun ★ 1.5k
0
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9
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2.1k
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ReportingTools gene IDs
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updated 8.1 years ago by 59k • written 8.1 years ago by ★ 1.5k
0
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5
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summarizeOverlaps using GRanges or bed file as reads?
convert convert
updated 8.1 years ago by 25k • written 8.1 years ago by 7.8k
0
votes
0
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632
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BiomaRt getBM error: Unknown column
convert biomaRt convert biomaRt
8.1 years ago Guest User ★ 12k
0
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5
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A question about the function readGAlignmentPairs in GenomicRnages package
Alignment Cancer convert GenomicAlignments Alignment Cancer convert GenomicAlignments
updated 8.1 years ago by 15k • written 8.1 years ago by ▴ 50
0
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0
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1.1k
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CellMix package use with own data matrix
convert convert
8.1 years ago Riba Michela ▴ 90
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0
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885
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crlmm problem
SNP convert beadarray crlmm SNP convert beadarray crlmm
8.1 years ago Matthias Arnold ▴ 10
0
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0
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1.2k
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DMR identification: minfi speed, memory problems
Annotation convert minfi methyAnalysis bumphunter Annotation convert minfi methyAnalysis
8.2 years ago Allegra Petti ▴ 120
0
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8
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1.5k
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methyAnalysis for DMR identification
convert methyAnalysis convert methyAnalysis
updated 8.2 years ago by ▴ 160 • written 8.2 years ago by ★ 12k
0
votes
6
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2.2k
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DMR identification: minfi speed, memory problems
Annotation convert minfi methyAnalysis bumphunter Annotation convert minfi methyAnalysis
updated 8.2 years ago by 59k • written 8.2 years ago by ★ 12k
0
votes
2
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819
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Tigre Package question 3
Microarray impute PROcess convert mmgmos puma tigre trigger Microarray impute PROcess
updated 8.3 years ago by ▴ 60 • written 8.3 years ago by ▴ 50
0
votes
2
replies
1.2k
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Minfi "mapToGenome" error when attempting to generate a genomicRatioSet
convert minfi convert minfi
updated 8.3 years ago by 6.5k • written 8.3 years ago by ▴ 30
0
votes
1
reply
1.0k
views
Using GOstats with ScanArray Express Data
Organism probe convert GOstats Organism probe convert GOstats
updated 8.3 years ago by 13k • written 8.3 years ago by ★ 12k
0
votes
3
replies
1.5k
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ChIPpeakAnno: TSS at - strand
Annotation convert ChIPpeakAnno Annotation convert ChIPpeakAnno
8.3 years ago Julie Zhu ★ 4.3k
0
votes
2
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ensemblVEP, variant_effect_predictor versions and release schedule
Transcription HapMap PolyPhen SIFT convert genomes ensemblVEP Transcription HapMap SIFT
updated 8.3 years ago by ★ 6.7k • written 8.4 years ago by ▴ 30
0
votes
0
replies
790
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Fwd: GWASTools
cdf convert GWASTools cdf convert GWASTools
8.4 years ago Stephanie M. Gogarten ▴ 820
0
votes
1
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1.9k
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gage and GO analysis
GO convert gage GO convert gage
updated 8.4 years ago by ▴ 570 • written 8.4 years ago by ★ 12k
0
votes
0
replies
765
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CAMERA output to Neutral Monoisotopic Mass
convert CAMERA convert CAMERA
8.4 years ago Charles Determan Jr ▴ 140
1
vote
1
reply
1.7k
views
RleList
convert IRanges convert IRanges
updated 8.4 years ago by 11k • written 8.4 years ago by ▴ 20
50 results • Page 1 of 1
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Replies
Comment: Quantile Normalization after rma or not? by Yang Shi • 0
Thanks you so much sir! But I'm still confused with the boxplot showing here. Why oligo::rma could not get the plot like limma::normalizeBe…
Answer: how to understand cpm=1 and how filterByExpr works? by gowthamee • 0
I found the following two articles very helpful in explaining the functions "cpm" and "filterByExpr" Article#1: From reads to genes to pat…
Comment: different results in DESeq2 when comparing groups in two ways by zohreh.fazelan • 0
Thank you for your response. But I have few comparisons in which there are more significantly expressed genes in the socond way compared to…
Comment: lmFit, continuous exposure, adjustment covariates by Gordon Smyth 45k
Your code `t(dat[43:ncol(dat)]` is not even syntactically correct. It could not possibly run in R. You need to create an expression matrix…
Comment: Handling of missing values in limma by Gordon Smyth 45k
limma uses all the observations. There's nothing complicated about it. limma does not remove any persons from the analysis. I did not tel…
Votes
A: redundant probe sets in Affymetrix HG-U219
Answer: Quantile Normalization after rma or not?
Answer: Quantile Normalization after rma or not?
Answer: Using featureCounts and downloading Rsubread
Answer: different results in DESeq2 when comparing groups in two ways
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