Showing : assign • reset
1
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1.3k
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Limma and Names Assignment
ASSIGN ASSIGN
written 12.6 years ago by ▴ 760
0
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0
replies
632
views
Error in data.frame(ASSIGN = "ASSIGN parameters", version = as.character(utils::packageVersion("ASSIGN")), : arguments imply differing number of …
software error assign
3.8 years ago yueli7 ▴ 20
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2
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1.0k
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LIMMA: how to assign file name
limma ASSIGN limma ASSIGN
updated 5.3 years ago by 0 • written 19.0 years ago by ▴ 180
0
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11
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3.5k
views
SNP6 data to VCF
SNP oligo ASSIGN SNP oligo ASSIGN
updated 5.7 years ago by • 0 • written 12.2 years ago by 21k
0
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1
reply
990
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Query regarding DESeq
DESeq ASSIGN DESeq ASSIGN
updated 9.8 years ago by ★ 13k • written 9.8 years ago by ▴ 10
0
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5
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4.3k
views
annotating microarray data with mogene10stv1
Microarray Annotation annotate limma ASSIGN Microarray Annotation annotate limma ASSIGN
updated 9.8 years ago by 65k • written 9.8 years ago by ▴ 70
0
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8
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3.1k
views
Annotation files for bacterial genome RNAseq
Alignment Annotation ASSIGN Alignment Annotation ASSIGN
updated 9.9 years ago by 65k • written 9.9 years ago by ▴ 80
0
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2
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1.2k
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error on detecting regions
ASSIGN ASSIGN
updated 9.9 years ago by ▴ 440 • written 9.9 years ago by ★ 13k
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4
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1.5k
views
GenomicRanges select parameter
GenomicRanges ASSIGN GenomicRanges ASSIGN
updated 9.9 years ago by ▴ 30 • written 9.9 years ago by ★ 11k
0
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1
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2.5k
views
DataFrame(..., check.names=F); colnames change when assign data using '[[', not when using '[,]'
ASSIGN ASSIGN
updated 9.9 years ago by ★ 11k • written 9.9 years ago by ▴ 40
0
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3
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1.2k
views
Dealing with probes with high fold change but PA call 0
Clustering probe ASSIGN Clustering probe ASSIGN
updated 10.4 years ago by ★ 13k • written 10.4 years ago by ▴ 230
0
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5
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2.2k
views
Single-channel GenePix analysis with Limma (bg correction, normalization, weights)
Microarray Normalization vsn limma ASSIGN Microarray Normalization vsn limma ASSIGN
updated 10.5 years ago by 50k • written 10.5 years ago by ▴ 40
0
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1
reply
1.3k
views
ChIPpeakAnno
ChIPpeakAnno ASSIGN ChIPpeakAnno ASSIGN
10.9 years ago Julie Zhu ★ 4.3k
0
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2
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3.6k
views
From location to get the SNP rs ID
SNP Cancer SNPlocs ASSIGN SNP Cancer SNPlocs ASSIGN
updated 10.9 years ago by 16k • written 10.9 years ago by ▴ 970
0
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1
reply
1.7k
views
Fwd: feature weights in 'superpc' package
Survival ASSIGN Survival ASSIGN
updated 11.0 years ago by ★ 4.2k • written 11.0 years ago by ▴ 10
0
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5
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1.9k
views
Question regarding cellhts2 output
Normalization Visualization PROcess cellHTS2 ASSIGN Normalization Visualization PROcess
11.1 years ago maziz@tgen.org ▴ 70
0
votes
1
reply
1.1k
views
fRMA for Gene ST arrays
affy oligo frma ASSIGN affy oligo frma ASSIGN
updated 11.1 years ago by ▴ 830 • written 11.1 years ago by ▴ 100
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0
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1.1k
views
how to use color to represent significant changed genes in maPlot of edgeR
ASSIGN ASSIGN
11.1 years ago wang peter ★ 2.0k
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5
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2.2k
views
yieldSize and paired end data in SummarizeOverlaps error?
BSgenome PROcess BSgenome ASSIGN BSgenome PROcess BSgenome ASSIGN
updated 11.1 years ago by ★ 6.8k • written 11.2 years ago by ▴ 10
0
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0
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837
views
Finding genes with minimal expression across a set of conditions?
ASSIGN ASSIGN
11.2 years ago Ryan C. Thompson ★ 7.9k
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0
replies
1.5k
views
Classification in Mass Spectrometry Data
Microarray Classification Cancer Ovarian PROcess MLInterfaces ASSIGN Microarray Cancer
11.5 years ago McGee, Monnie ▴ 300
0
votes
2
replies
1.4k
views
Question regarding cellhts2 output
Normalization cellHTS2 ASSIGN Normalization cellHTS2 ASSIGN
11.8 years ago maziz@tgen.org ▴ 70
0
votes
12
replies
2.1k
views
Newbie methylation and stats question
probe ASSIGN probe ASSIGN
updated 11.9 years ago by ★ 4.2k • written 11.9 years ago by ▴ 440
0
votes
0
replies
2.7k
views
qrqc with error message of "unable to start device PNG" and "unable to open connection to X11 display"?
GO qrqc ASSIGN GO qrqc ASSIGN
11.9 years ago Sang Chul Choi ▴ 230
0
votes
4
replies
1.5k
views
edgeR: design matrix
ASSIGN ASSIGN
updated 11.9 years ago by 50k • written 12.0 years ago by ▴ 420
0
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4
replies
3.5k
views
edgeR : input and design matrix help
edgeR ASSIGN edgeR ASSIGN
12.0 years ago KJ Lim ▴ 420
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0
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1.1k
views
edgeR input and design matrix help
edgeR ASSIGN edgeR ASSIGN
12.0 years ago KJ Lim ▴ 420
0
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0
replies
1.0k
views
problems with oneChannelGUI
affylmGUI oneChannelGUI ASSIGN affylmGUI oneChannelGUI ASSIGN
12.1 years ago Manuela Di Russo ▴ 70
0
votes
1
reply
917
views
RangedData Element Metadata
Coverage rtracklayer ASSIGN Coverage rtracklayer ASSIGN
updated 12.1 years ago by ★ 11k • written 12.1 years ago by ★ 1.5k
0
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2
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955
views
Creating a customized cut flow with the affy/limma packages
GO limma ASSIGN GO limma ASSIGN
updated 12.2 years ago by 65k • written 12.2 years ago by ▴ 20
0
votes
1
reply
974
views
Creating a customized cut flow with the affy/limma packages
GO hgu133plus2 limma ASSIGN GO hgu133plus2 limma ASSIGN
updated 12.2 years ago by 65k • written 12.2 years ago by ★ 13k
0
votes
2
replies
1.2k
views
DEseq
ASSIGN ASSIGN
updated 12.2 years ago by ★ 6.0k • written 12.3 years ago by ▴ 30
0
votes
4
replies
1.5k
views
problem in reading bam files with EDASeq
Rsamtools EDASeq ASSIGN Rsamtools EDASeq ASSIGN
updated 12.3 years ago by ▴ 950 • written 12.3 years ago by ▴ 500
0
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2
replies
1.2k
views
htSeqTools - naming RangedData objects?
htSeqTools ASSIGN htSeqTools ASSIGN
updated 12.3 years ago by ★ 11k • written 12.3 years ago by ▴ 70
0
votes
0
replies
1.4k
views
limma - 2-color agilent microarray, GO annotation
Microarray Annotation GO Organism limma GOstats oligo ASSIGN Microarray Annotation GO
12.3 years ago Gordon Smyth 50k
0
votes
1
reply
1.1k
views
goSeq error
Cancer PROcess edgeR goseq ASSIGN Cancer PROcess edgeR goseq ASSIGN
12.5 years ago Matthew Young ▴ 50
0
votes
0
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1.4k
views
illuminaHumanv4 mappings
Infrastructure Cancer Homo sapiens probe AnnotationDbi ASSIGN Infrastructure Cancer probe
12.6 years ago Mark Cowley ▴ 910
0
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0
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843
views
"timecourse" package, problem with ordering of samples.
ASSIGN ASSIGN
12.6 years ago dha 2001 ▴ 30
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0
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1.2k
views
doubt in HTqPCR
Cancer ddCt cycle HTqPCR ASSIGN Cancer ddCt cycle HTqPCR ASSIGN
12.6 years ago Heidi Dvinge ★ 2.0k
0
votes
2
replies
1.6k
views
plotting probes along a chromosome
graph GenomeGraphs ASSIGN graph GenomeGraphs ASSIGN
updated 12.8 years ago by ▴ 550 • written 12.8 years ago by ▴ 240
0
votes
1
reply
4.2k
views
simpleafy plots
ASSIGN ASSIGN
updated 13.1 years ago by 65k • written 13.1 years ago by ★ 1.5k
0
votes
1
reply
925
views
Using Sample IDs from Sample Name column
ASSIGN ASSIGN
updated 13.1 years ago by ★ 2.0k • written 13.1 years ago by ▴ 10
0
votes
3
replies
1.3k
views
working with two factors in DESeq to analyze RNA-seq
DESeq ASSIGN DESeq ASSIGN
updated 13.2 years ago by 50k • written 13.2 years ago by ▴ 150
0
votes
1
reply
1.0k
views
question about get a summary gene expression information from the probe set associated with one specific gene
Annotation GO cdf probe affy convert ASSIGN Annotation GO cdf probe affy convert
updated 13.3 years ago by ▴ 90 • written 13.3 years ago by 65k
0
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0
replies
924
views
question about get a summary gene expression information from the probe set associated with one specific gene
Annotation probe convert ASSIGN Annotation probe convert ASSIGN
13.4 years ago Xiaowei Guan ▴ 90
0
votes
9
replies
2.8k
views
Conversion of affymetrix cell file to raw text file
Microarray probe ASSIGN Microarray probe ASSIGN
13.4 years ago viritha kaza ▴ 580
0
votes
3
replies
1.3k
views
Question about clustering and cluster validation
ASSIGN ASSIGN
updated 13.5 years ago by ▴ 20 • written 13.5 years ago by ▴ 370
0
votes
8
replies
2.9k
views
biomaRt - batch query for chromosome location to gene identifier?
biomaRt ASSIGN biomaRt ASSIGN
updated 13.5 years ago by 6.7k • written 13.5 years ago by ▴ 120
0
votes
1
reply
1.3k
views
Bootstrapping paired samples and tiny groups
ASSIGN ASSIGN
updated 13.6 years ago by ★ 6.0k • written 13.7 years ago by ▴ 830
0
votes
2
replies
1.3k
views
error/problem with biomaRt gene symbol query
Microarray Cancer probe biomaRt ASSIGN Microarray Cancer probe biomaRt ASSIGN
updated 13.8 years ago by ▴ 500 • written 13.8 years ago by ▴ 100
50 results • Page 1 of 1
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Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
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Comment: Too many significant genes when integrating gtex and tcga
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