Showing : process • reset
4
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8
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1.8k
views
Designing a model matrix and further process?
limma annotation R process
6.8 years ago Biotechuos4 • 0
3
votes
3
replies
1.4k
views
EBImage: filtering in the presence of NAs
PROcess EBImage PROcess EBImage
updated 11.2 years ago by ★ 13k • written 11.2 years ago by ▴ 60
2
votes
6
replies
9.6k
views
GEOquery: how to extract experimental data? (confused)
PROcess GEOquery PROcess GEOquery
updated 12.7 years ago by ▴ 60 • written 12.7 years ago by ★ 1.9k
2
votes
3
replies
2.1k
views
How to get position for each gene ID/gene symbol instead of position for each transcript
Organism PROcess biomaRt GenomicFeatures Organism PROcess biomaRt GenomicFeatures
updated 13.7 years ago by ★ 13k • written 13.7 years ago by ★ 1.0k
2
votes
4
replies
6.3k
views
Too many (?) differentially expressed genes - edgeR and DESeq
PROcess edgeR DESeq PROcess edgeR DESeq
updated 10.8 years ago by ★ 13k • written 10.8 years ago by ▴ 120
2
votes
9
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3.4k
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GEOquery error
Annotation PROcess Annotation PROcess
updated 8.2 years ago by 6.7k • written 10.0 years ago by 65k
1
vote
1
reply
2.3k
views
How to hide or suppress note about ward method in clValid package?
Annotation PROcess Annotation PROcess
updated 9.8 years ago by ★ 1.3k • written 9.8 years ago by ★ 13k
1
vote
2
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5.9k
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read .mat file in R
process
updated 9.6 years ago by ★ 3.0k • written 9.6 years ago by • 0
1
vote
3
replies
1.5k
views
RMA on Exon Array NaN values
Normalization PROcess Normalization PROcess
updated 10.2 years ago by ★ 4.3k • written 10.2 years ago by ▴ 40
1
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2
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1.0k
views
deleted questions.. as its not very relevant..
process
6.8 years ago • updated 6.7 years ago bioDoctorate • 0
1
vote
9
replies
2.8k
views
BLAST search sequence for species ID from R?
Biostrings PROcess Biostrings PROcess
updated 14.4 years ago by ▴ 550 • written 14.4 years ago by ▴ 40
1
vote
0
replies
768
views
GSEA with one class metaanalysis
PROcess PROcess
17.2 years ago Gordon Smyth 50k
1
vote
0
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885
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RmiR, request for new package
miRNA Annotation GO cdf probe PROcess Category miRNA Annotation GO cdf probe PROcess
15.2 years ago Nishant Gopalakrishnan ▴ 340
0
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0
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getSeq human genomic sequences
Annotation Cancer BSgenome PROcess GLAD BSgenome IRanges Annotation Cancer BSgenome GLAD
15.3 years ago Hervé Pagès 16k
0
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1
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2.8k
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BIRD 2008
Genetics Pathways Cancer PROcess microRNA a4 Genetics Pathways Cancer PROcess microRNA
16.5 years ago Prof. Roland Wagner ▴ 100
0
votes
0
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849
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ABPkgBuilder Error; Again
Annotation GO Cancer Organism Biobase annotate AnnBuilder PROcess Annotation GO Cancer
18.7 years ago Barry Henderson ▴ 250
0
votes
4
replies
2.1k
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disagreement between biomaRt and topGO
GO hgu133plus2 annotate geneplotter graph Rgraphviz PROcess goTools biomaRt Category GO
updated 16.7 years ago by ▴ 500 • written 16.7 years ago by ★ 1.4k
0
votes
0
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764
views
dChip v li.wong() (Was: Re: warnings from li wong summary method in expresso)
Microarray Normalization Preprocessing Cancer hgu133plus2 probe affy limma PROcess Cancer
17.3 years ago Henrik Bengtsson ★ 2.4k
0
votes
0
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971
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FW: makecdfenv()
GO cdf PROcess altcdfenvs GO cdf PROcess altcdfenvs
19.8 years ago Lana Schaffer ▴ 80
0
votes
0
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750
views
Re: [R] Source package installation for WinXPpro
Microarray Cancer affy PROcess Microarray Cancer affy PROcess
20.6 years ago James W. MacDonald 65k
0
votes
2
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1.2k
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affy : ReadAffy() fails on HuGene-1_1-st-v1 chips
Microarray cdf affy makecdfenv PROcess oligo cycle Microarray cdf affy makecdfenv oligo
updated 12.3 years ago by 65k • written 12.3 years ago by ▴ 630
0
votes
1
reply
1.5k
views
Summarising Probe Sets for Agilent 4x44 Arrays
Clustering probe PROcess Clustering probe PROcess
updated 12.4 years ago by ▴ 80 • written 12.4 years ago by ▴ 10
0
votes
4
replies
1.4k
views
use of duplicateCorrelation in Limma with agilent one-color arrays
limma PROcess limma PROcess
updated 12.2 years ago by 50k • written 12.2 years ago by ▴ 150
0
votes
1
reply
1.3k
views
flowWorkspace transformation on FCS 3 data (Nikolas)
PROcess flowWorkspace PROcess flowWorkspace
updated 12.1 years ago by ▴ 30 • written 12.1 years ago by ▴ 240
0
votes
5
replies
2.4k
views
EasyRNASeq issue (missing bai files)
GO PROcess DESeq easyRNASeq GO PROcess DESeq easyRNASeq
updated 11.8 years ago by ▴ 10 • written 11.8 years ago by ★ 1.2k
0
votes
5
replies
1.3k
views
Visualizing the region of classification uncertainty on thresholded images
PROcess PROcess
updated 11.8 years ago by ▴ 650 • written 11.8 years ago by ★ 13k
0
votes
0
replies
1.1k
views
Fwd: ASSIST on contrast matrix
Network Homo sapiens limma PROcess Network Homo sapiens limma PROcess
11.7 years ago Seyed Ahmad Mousavi ▴ 10
0
votes
0
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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
3
replies
3.0k
views
Subsetting expression sets for mass spec data - second ask
Classification Cancer PROcess Classification Cancer PROcess
updated 11.4 years ago by 21k • written 11.4 years ago by ▴ 300
0
votes
7
replies
3.6k
views
Weird things happening with minfi and RcppEigen
PROcess minfi PROcess minfi
updated 11.4 years ago by ★ 4.3k • written 11.4 years ago by ▴ 440
0
votes
0
replies
940
views
FDA soliciting proposals to analyze gene expression datasets
Microarray Pharmacogenomics PROcess Microarray Pharmacogenomics PROcess
18.0 years ago Wolfgang Huber ★ 13k
0
votes
0
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1.2k
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cghMCR package:Is it possible to find MCR by not usingDNAcopy object?
PROcess DNAcopy cghMCR PROcess DNAcopy cghMCR
12.6 years ago viritha kaza ▴ 580
0
votes
0
replies
997
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FW: normalization one color microarrays
Normalization hgug4112a PROcess Agi4x44PreProcess Normalization hgug4112a PROcess
12.7 years ago Paz Tapia Ramirez ▴ 150
0
votes
1
reply
1.1k
views
Issues with BioC GO annotations and NetAffx
Annotation GO probe affy PROcess GOstats Category Annotation GO probe affy PROcess
updated 18.2 years ago by ★ 7.4k • written 18.2 years ago by ▴ 110
0
votes
4
replies
1.1k
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win 64bit and general BioC computing power?
GO Clustering affy limma gcrma PROcess GO Clustering affy limma gcrma PROcess
updated 19.9 years ago by ▴ 360 • written 19.9 years ago by ▴ 940
0
votes
0
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1.2k
views
R hthgu133afrmavecs_1.1.0 error: row.effects should sum to zero
GO probe PROcess frma GO probe PROcess frma
9.8 years ago Matthew McCall ▴ 830
0
votes
2
replies
1.7k
views
preparing sequencing data for use with anota
Sequencing Normalization PROcess anota Sequencing Normalization PROcess anota
updated 8.8 years ago by • 0 • written 10.1 years ago by ★ 13k
0
votes
0
replies
1.0k
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Question about 'updateCel' from package 'affxparser'
cdf PROcess affxparser cdf PROcess affxparser
12.7 years ago Henrik Bengtsson ★ 2.4k
0
votes
1
reply
964
views
Affymetrix exon arrays?
Normalization Cancer Breast cdf affy PROcess Normalization Cancer Breast cdf affy
updated 17.6 years ago by ▴ 20 • written 17.6 years ago by ▴ 310
0
votes
4
replies
1.9k
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peer review process for bioconductor packages
PROcess PROcess
22.1 years ago Vincent J. Carey, Jr. 6.7k
0
votes
0
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1.0k
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(1) Anova for 12 Affy yeast chips (Yg98) // (2) Problem fitting Li&Wong model with Affy 1.0 :
GO Yeast cdf genefilter affy PROcess GO Yeast cdf genefilter affy PROcess
22.0 years ago julien.sylvestre@wotan.ens.fr ▴ 50
0
votes
2
replies
1.3k
views
affy expression values
Proteomics affy PROcess Proteomics affy PROcess
updated 21.8 years ago by ▴ 640 • written 21.8 years ago by ▴ 10
0
votes
1
reply
1.0k
views
Annotation for Nonspecificity of Affymetrix Probes?
probe PROcess probe PROcess
updated 21.8 years ago by ★ 5.5k • written 21.8 years ago by ▴ 70
0
votes
1
reply
990
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Problem whit Affy
GO cdf probe PROcess GO cdf probe PROcess
updated 21.7 years ago by ▴ 640 • written 21.7 years ago by ▴ 10
0
votes
6
replies
1.3k
views
request for letter of support
PROcess PROcess
updated 21.5 years ago by ▴ 220 • written 21.5 years ago by ★ 5.5k
0
votes
1
reply
1.3k
views
Job Posting in Biostatistics/Statistics
Bayesian Survival Cancer PROcess ASSET Bayesian Survival Cancer PROcess ASSET
updated 21.4 years ago by ▴ 80 • written 21.5 years ago by ▴ 10
0
votes
0
replies
781
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protien and peptide mass spectrometry
genefilter PROcess genefilter PROcess
21.3 years ago Nicholas Lewin-Koh ▴ 430
0
votes
0
replies
589
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Widget option enabled:Thank you
PROcess PROcess
21.3 years ago Tapan Mehta ▴ 270
0
votes
0
replies
1.3k
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InfoVis 2003 Call for Papers
Visualization PROcess Category Visualization PROcess Category
21.3 years ago rgentleman ★ 5.5k
0
votes
3
replies
2.2k
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Getting GO ids for genenames in plasmodium falciparum
GO Plasmodium falciparum PROcess convert GO Plasmodium falciparum PROcess convert
updated 10.6 years ago by 25k • written 10.6 years ago by ★ 13k
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 41k
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…
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
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