Showing : Beadarray • reset
2
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4
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1.4k
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How to get methylation data in count data format from "Infinium MethylationEPIC BeadChips (Illumina)" idat files
methylationArrayAnalysis illuminaio beadarray DSS bsseqData
2.7 years ago Jojo • 0
0
votes
1
reply
773
views
readIDAT output to beadarray package input file
Beadarray readIDAT
updated 2.8 years ago by 67k • written 2.8 years ago by • 0
1
vote
3
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1.0k
views
Help with the beadarray package
IlluminaChip beadarray
updated 3.0 years ago by 51k • written 3.0 years ago by • 0
0
votes
1
reply
909
views
How to extract DEG from limmarResults object after beadarray analysis
beadarray limma
updated 3.2 years ago by 51k • written 3.2 years ago by ▴ 10
3
votes
1
reply
1.1k
views
Limma: extend reading raw Illumina files, with Gene Omnbus Expression formats
beadarray GSE22247 limma GEOquery IlluminaChip
updated 3.8 years ago by 51k • written 3.8 years ago by • 0
3
votes
1
reply
996
views
How to convert dataframe into ExpressionSetIllumina / summarized data with beadarray package?
beadarray
updated 4.9 years ago by ★ 1.1k • written 4.9 years ago by ▴ 20
1
vote
3
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2.6k
views
Installing arrayQualityMetrics: ERROR: lazy loading failed
arrayqualitymetrics beadarray
8.3 years ago • updated 5.2 years ago Lluís Revilla Sancho ▴ 750
0
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3
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1.5k
views
cram for new chips
beadarray illumina beadarray crlmm
updated 6.3 years ago by ★ 6.8k • written 6.3 years ago by • 0
2
votes
4
replies
1.5k
views
The error when using beadarry and limma packages for analysing illumina chip
limma beadarray illumina
updated 6.3 years ago by 51k • written 6.3 years ago by ▴ 10
0
votes
5
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2.0k
views
Probe summerization of Human HT-12 V4 BeadChip arrays
beadarray bead chip illuminahumanv4.db normalization RMA
updated 6.9 years ago by 67k • written 6.9 years ago by • 0
0
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2
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1.3k
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beadsummary example- Analysing data from GEO
beadarray
7.4 years ago anna.katsiki • 0
0
votes
4
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1.8k
views
beadarray: readIllumina with sample sheet broken due to Illumina switching to 12 digit chip identifiers
beadarray bug illumina human ht-12 v4 illumina beadchip
updated 7.4 years ago by ★ 1.1k • written 7.4 years ago by • 0
0
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0
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2.6k
views
lumiR error Error in gregexpr("\t", dataLine1)[[1]] : subscript out of bounds
lumi illumina normalization beadarray
7.4 years ago hkarakurt ▴ 20
0
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1
reply
1.2k
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beadarray: summarizing iScan data is not working
beadarray iscan
7.5 years ago S. K. • 0
0
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0
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1.2k
views
beadarray: Make grep in readSamplesheet case insensitive
beadarray bug
7.5 years ago S. K. • 0
0
votes
1
reply
1.5k
views
Problems in using lumi for importing illumina raw data
beadarray lumi normalization microarray illumina
updated 7.8 years ago by 51k • written 7.8 years ago by ▴ 120
0
votes
1
reply
1.0k
views
beadarray error conversion
beadarray limma ExpressionSet
updated 7.8 years ago by 51k • written 7.8 years ago by • 0
0
votes
7
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2.4k
views
Bioconductor 2.6 is released
Sequencing Microarray Visualization Infrastructure PROcess beadarray keggorthology eisa
updated 8.1 years ago by • 0 • written 14.5 years ago by ★ 1.6k
0
votes
1
reply
1.1k
views
Processing iScan raw data without perBeadFile.txt
microarray beadarray
updated 8.5 years ago by ★ 6.5k • written 8.5 years ago by • 0
1
vote
2
replies
1.5k
views
readIllumina couln't read bead-level txt file from GEO raw data
beadarray bead-level GEO lumi
updated 8.6 years ago by ★ 6.5k • written 8.6 years ago by • 0
3
votes
12
replies
6.6k
views
packages installation problem
limma Rqc beadarray Lumi
updated 8.7 years ago by ▴ 70 • written 8.7 years ago by • 0
0
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0
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1.4k
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Can beadarray package process SNP normalization and genotype calling?
beadarray
8.7 years ago zhuyeqingting • 0
0
votes
2
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2.1k
views
Beadarray import of iScan generated Illumina gene expression data
Microarray GO ChipName beadarray Microarray GO ChipName beadarray
updated 8.7 years ago by • 0 • written 12.8 years ago by ▴ 350
0
votes
2
replies
2.0k
views
Reading IDAT files from Illumina HumanMethylation450 BeadChip with beadarray
beadarray illumina methylation microarray
updated 9.0 years ago by 21k • written 9.0 years ago by • 0
4
votes
10
replies
2.4k
views
Zero values for bead backgrounds (reading idat files using Illuminaio)
illuminaio idat beadarray
updated 9.1 years ago by ★ 6.5k • written 9.1 years ago by ▴ 30
0
votes
7
replies
1.8k
views
getting error in processSwathData command from the beadarray package
microarray beadarray illumina
updated 9.5 years ago by ★ 6.5k • written 9.6 years ago by • 0
0
votes
3
replies
2.7k
views
Problem with reading raw Illumina Human HT-12 v4 data using beadarray
beadarray readIllumina
9.6 years ago jaro.slamecka ▴ 140
0
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1
reply
1.3k
views
Fail to read qcFile in readBeadSummaryData function
beadarray
updated 9.6 years ago by ▴ 30 • written 9.7 years ago by • 0
0
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0
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1.4k
views
beadarray - QC file loads but doesn't appear in ExpressionSetIllumina object
beadarray qc
9.7 years ago meeta.mistry ▴ 30
0
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0
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1.9k
views
Any alternative to GenomeStudio to analyze Illumina VeraCode arrays? Is Beadarray an option?
microarray beadarray Illumina Veracode
9.7 years ago lacion • 0
0
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6
replies
2.3k
views
Illumina bead array analysis
illumina beadarray
updated 19 months ago by ★ 1.1k • written 10.0 years ago by • 0
0
votes
3
replies
1.6k
views
unable to set sampleNames after combine (from beadarray package) on ExpressionSetIllumina
beadarray
updated 10.1 years ago by 25k • written 10.1 years ago by ▴ 220
0
votes
3
replies
1.8k
views
sampleSheet problem in beadArray
beadarray beadarray
updated 10.1 years ago by 67k • written 10.1 years ago by ★ 13k
0
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0
replies
1.4k
views
crlmm problem
SNP convert beadarray crlmm SNP convert beadarray crlmm
10.5 years ago Matthias Arnold ▴ 10
0
votes
1
reply
2.9k
views
Normalization of Illumina Array with separate bgx-file
Annotation limma beadarray bgx Annotation limma beadarray bgx
updated 10.7 years ago by 51k • written 10.7 years ago by ▴ 10
0
votes
2
replies
1.6k
views
crlmm problem
SNP beadarray crlmm SNP beadarray crlmm
10.7 years ago Aaerp ▴ 40
0
votes
1
reply
2.2k
views
hoeffd function (CRAN HMisc package) use in arrayQualityMetrics
beadarray beadarray
updated 10.8 years ago by ★ 13k • written 10.8 years ago by ★ 13k
0
votes
0
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1.9k
views
Illumina Expression analysis from iDAT files
Normalization limma beadarray lumi illuminaio Normalization limma beadarray lumi
10.8 years ago Kasper Daniel Hansen ★ 6.5k
3
votes
9
replies
6.1k
views
Illumina Expression analysis from iDAT files
beadarray lumi illuminaio idat
updated 2.8 years ago by 51k • written 10.9 years ago by 21k
0
votes
1
reply
1.1k
views
beadarray library: perBeadFile
GLAD beadarray GLAD beadarray
updated 11.2 years ago by ★ 6.5k • written 11.2 years ago by ▴ 10
0
votes
9
replies
2.0k
views
beadarray - combining swath files
PROcess beadarray PROcess beadarray
updated 11.3 years ago by ★ 1.1k • written 11.3 years ago by ▴ 70
0
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0
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1.5k
views
using beadarray to process iscan expression data - error using readIllumina()
PROcess beadarray PROcess beadarray
11.3 years ago Darren Plant ▴ 70
0
votes
0
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1.4k
views
How do I background correct an Illumina eset without using lumiB
Microarray probe limma PROcess convert beadarray lumi Microarray probe limma PROcess
11.4 years ago Gordon Smyth 51k
0
votes
1
reply
1.4k
views
How do I background correct an Illumina eset without using lumiB?
Microarray probe PROcess convert beadarray lumi Microarray probe PROcess convert lumi
updated 11.4 years ago by ▴ 440 • written 11.4 years ago by ★ 13k
0
votes
1
reply
1.3k
views
ABarray error
Microarray Annotation GO limma beadarray Microarray Annotation GO limma beadarray
11.4 years ago Mani, Jay ▴ 20
0
votes
0
replies
957
views
beadarray - combining swath files
beadarray beadarray
11.6 years ago Sunitha M ▴ 20
0
votes
0
replies
993
views
Beadarray - combining the 2 swath files
beadarray beadarray
11.6 years ago Sunitha M ▴ 20
0
votes
1
reply
4.3k
views
Problem installing packages on new R
limma beadarray lumi arrayMvout limma beadarray lumi arrayMvout
updated 11.6 years ago by 67k • written 11.6 years ago by ▴ 10
0
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0
replies
1.1k
views
Fwd: iScan
beadarray beadarray
11.6 years ago Rajasree Menon ▴ 30
0
votes
2
replies
1.4k
views
Generating GEO submission files from beadarray summary data
beadarray lumi PROMISE beadarray lumi PROMISE
updated 12.0 years ago by ★ 1.1k • written 12.0 years ago by ★ 4.2k
50 results • Page 1 of 1
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Comment: miRTarRnaseq library by mercedeh.movassagh ▴ 20
Hi Maria, so what is the code you are using? By the 3rd way to conduct the analysis do you mean looking at the interaction model from part …
Comment: miRTarRnaseq library by María Calvo • 0
Hello, in line with the previous questions, when the miRNA-mRNA interaction analysis is performed (3 rd way to conduct the analysis), I obt…
Answer: heatmap with batch effect by James W. MacDonald 67k
You have only one condition in the second batch, so it's not possible to remove the batch effect. You can probably adjust for it somewhat, …
Answer: how do I convert an Ilumn IDREF to a CPG loci by James W. MacDonald 67k
``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame with 865859 rows and 3 columns ch…
Answer: Which input data is acceptable for MAST? by Andrew_McDavid ▴ 270
Not too familiar with SCT v2. If it also has a point-mass at zero and the non-zero component is roughly-symmetric, then it might work ok w…
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Answer: How to control batch effect if Group and batch are same?
Answer: How to control batch effect if Group and batch are same?
Answer: How to control batch effect if Group and batch are same?
Comment: Convert HGVS Representation back to Reference Genome Coordinates
Answer: How to control batch effect if Group and batch are same?
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