Showing : PROcess • reset
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recommend package for exon array analysis
PROcess PROcess
updated 11.6 years ago by ★ 1.3k • written 11.6 years ago by ★ 13k
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GOSeq with unsupported organism (Arabidopsis) and retrieving gene IDs from enriched GO categories
GO Organism PROcess goseq GO Organism PROcess goseq
11.7 years ago Dale Richardson ▴ 30
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VSN after xps with RaGene2.0ST chips - is there a way to keep an identifier?
vsn PROcess xps vsn PROcess xps
updated 11.7 years ago by ★ 13k • written 11.7 years ago by ▴ 380
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question regarding function IMA.methy450PP in IMA package
PROcess PROcess
11.7 years ago Jack Luo ▴ 450
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12
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3.7k
views
bumphunter DMRs difficulties
PROcess minfi bumphunter PROcess minfi bumphunter
updated 11.7 years ago by ★ 6.5k • written 11.7 years ago by ▴ 160
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2
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Limma design : What is the "best" method to infer biological replicates during differentially expression analysis
Microarray limma PROcess Microarray limma PROcess
updated 11.7 years ago by 53k • written 11.7 years ago by ▴ 20
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RMA on Exon Array NaN values
Normalization PROcess Normalization PROcess
updated 11.7 years ago by ★ 4.3k • written 11.7 years ago by ▴ 40
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Tigre Package question 3
Microarray impute PROcess convert mmgmos puma tigre trigger Microarray impute PROcess
updated 11.7 years ago by ▴ 60 • written 11.7 years ago by ▴ 50
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FW: Tigre Package question 3
impute PROcess mmgmos puma impute PROcess mmgmos puma
11.7 years ago Solanki, Anisha ▴ 60
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4
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3.5k
views
Identifying Processes as Upregulated or Downregulated
PROcess GOstats PROcess GOstats
updated 11.7 years ago by 68k • written 11.7 years ago by ▴ 100
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7
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2.5k
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Gene Ontology Annotations from Gene Names
Microarray GO Organism PROcess GOstats Microarray GO Organism PROcess GOstats
updated 11.7 years ago by 68k • written 11.8 years ago by ★ 13k
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1
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1.2k
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Tigre Package question 2
PROcess mmgmos puma PROcess mmgmos puma
updated 11.7 years ago by ▴ 50 • written 11.8 years ago by ▴ 60
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FW: Tigre Package question 2
PROcess mmgmos puma PROcess mmgmos puma
11.8 years ago Solanki, Anisha ▴ 60
0
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3
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2.4k
views
minfi release 1.8
SNP Annotation GO probe SNPlocs PROcess minfi bumphunter ChAMP SNP Annotation GO probe
updated 11.8 years ago by ▴ 20 • written 11.8 years ago by ★ 4.2k
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3
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1.7k
views
Design/Contrast Matrix for Two Channel Microarray
Microarray limma PROcess Microarray limma PROcess
updated 11.8 years ago by 53k • written 11.8 years ago by ★ 13k
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1
reply
952
views
Bioconductor Digest, Vol 132, Issue 5
PROcess edgeR PROcess edgeR
11.8 years ago Gordon Smyth 53k
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2.4k
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prior df estimation of estimateDisp function
PROcess PROcess
updated 11.8 years ago by 53k • written 11.8 years ago by ▴ 180
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5
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902
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Ontology
PROcess PROcess
updated 11.8 years ago by ★ 13k • written 11.8 years ago by ★ 13k
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3
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2.6k
views
limma and Volcano Plots
Microarray Proteomics Cancer PROcess Microarray Proteomics Cancer PROcess
updated 11.8 years ago by 53k • written 11.8 years ago by ▴ 130
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2
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1.3k
views
restoring lattice-like format in flowViz?
PROcess flowCore PROcess flowCore
updated 11.8 years ago by ★ 1.3k • written 11.8 years ago by ★ 13k
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3.7k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
11.8 years ago Elena Serrano ▴ 30
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890
views
IPPD model fit
PROcess IPPD PROcess IPPD
11.8 years ago Yuri Galachyants ▴ 10
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9
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3.0k
views
using frma and brainarray cdf on exon arrays
cdf affy PROcess oligo xps frma cdf affy PROcess oligo xps frma
updated 11.8 years ago by ▴ 600 • written 11.8 years ago by ▴ 100
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1
reply
2.6k
views
Importing RMA processed data into limma for eBayes
Microarray Normalization affy vsn limma PROcess xps Microarray Normalization affy vsn
11.9 years ago Matthew Thornton ▴ 380
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1.1k
views
processing BamFiles - streaming vs not streaming
PROcess PROcess
updated 11.9 years ago by ★ 11k • written 11.9 years ago by ▴ 360
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1
reply
2.3k
views
Analysis of Affymetrix Human Gene 2.0 ST arrays
Transcription Annotation Normalization GO hgu133plus2 affy PROcess Category Transcription
updated 11.9 years ago by ▴ 80 • written 11.9 years ago by ▴ 20
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2
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1.9k
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easyRNAseq and DEseq for no replicate RNAseq
RNASeq PROcess easyRNASeq RNASeq PROcess easyRNASeq
updated 11.9 years ago by ▴ 320 • written 12.0 years ago by ▴ 10
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4
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4.4k
views
Analysis of Affymetrix Human Gene 2.0 ST arrays
Annotation Normalization hgu133plus2 affy PROcess Category Annotation Normalization affy
updated 11.9 years ago by 68k • written 11.9 years ago by ★ 13k
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1
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1.7k
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Hypergeometric test
PROcess PROcess
updated 12.0 years ago by ★ 13k • written 12.0 years ago by ▴ 130
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views
ShortRead qa() error: Error in density.default(qscore) : 'x' contains missing values
PROcess ShortRead PROcess ShortRead
updated 12.0 years ago by 25k • written 12.0 years ago by ▴ 300
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1
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2.5k
views
Affymetrix HTA 2 array analysis
BiocViews Annotation Cancer Breast Organism PROcess biocViews pdInfoBuilder BiocViews
updated 12.0 years ago by ★ 4.3k • written 12.0 years ago by ▴ 290
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2
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1.9k
views
Limma and pre processing Agilent single color arrays
limma PROcess limma PROcess
updated 12.0 years ago by 53k • written 12.0 years ago by ▴ 20
0
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1
reply
3.1k
views
Analysis of Human Gene 1.1 ST Array
Microarray cdf affy PROcess oligo xps Microarray cdf affy PROcess oligo xps
updated 12.0 years ago by 68k • written 12.0 years ago by ▴ 190
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2
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1.6k
views
segfault ReadAffy cause 'memory not mapped'
Cancer hgu133plus2 affy PROcess Cancer hgu133plus2 affy PROcess
updated 12.0 years ago by ★ 1.2k • written 12.0 years ago by ▴ 70
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Rsubread segfault
Annotation PROcess Rsubread Annotation PROcess Rsubread
12.1 years ago James W. MacDonald 68k
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views
how to obtain base counts from BAM file at specific genomic coordinates
SNP Sequencing Coverage Alignment Cancer Biostrings PROcess IRanges GenomicRanges SNP
updated 12.1 years ago by ★ 11k • written 12.1 years ago by 16k
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3
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views
Getting GO ids for genenames in plasmodium falciparum
GO Plasmodium falciparum PROcess convert GO Plasmodium falciparum PROcess convert
updated 12.1 years ago by 25k • written 12.1 years ago by ★ 13k
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2
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1.6k
views
looking for data file for ATH1 (GPL198)
PROcess frma PROcess frma
updated 12.1 years ago by ▴ 50 • written 12.1 years ago by ▴ 830
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1
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2.3k
views
trouble reading DNA stringset from keggGet function
PROcess KEGGREST PROcess KEGGREST
updated 12.2 years ago by 68k • written 12.2 years ago by ★ 13k
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3
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1.7k
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pathview puzzle
PROcess pathview PROcess pathview
updated 12.2 years ago by ★ 1.6k • written 12.2 years ago by ▴ 60
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1
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1.4k
views
Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
updated 12.2 years ago by ▴ 50 • written 12.2 years ago by ★ 4.3k
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1
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1.4k
views
Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
12.2 years ago Nitesh Turaga ▴ 50
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1
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1.7k
views
Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation PROcess pdInfoBuilder charm Annotation PROcess pdInfoBuilder charm
updated 12.2 years ago by ★ 4.3k • written 12.2 years ago by ▴ 50
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2
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2.5k
views
problem with makeOrgPackageFromNCBI (for Chinese hamster)
Annotation GO db0 PROcess Annotation GO db0 PROcess
updated 12.2 years ago by ★ 7.2k • written 12.2 years ago by ★ 4.1k
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15
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3.3k
views
segfault ReadAffy cause 'memory not mapped'
PROcess PROcess
updated 12.2 years ago by ▴ 70 • written 12.3 years ago by ▴ 50
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3
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3.3k
views
MEDIPS, GRanges, IRanges error processing BAM file
Alignment BSgenome PROcess BSgenome IRanges MEDIPS Alignment BSgenome PROcess BSgenome
updated 12.2 years ago by ▴ 570 • written 12.2 years ago by ▴ 40
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1.1k
views
Connectionists: Open position for an Experienced Researcher at Johannes Kepler University Linz, Austria
Coverage PROcess Coverage PROcess
12.2 years ago Secretary Institute of Bioinformatics ▴ 20
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4
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4.0k
views
Pathview for global and overview maps Re: using pathview about hsa01100
Pathways graph PROcess SIM gage pathview Pathways graph PROcess SIM gage pathview
updated 12.2 years ago by ▴ 230 • written 12.2 years ago by ★ 1.6k
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Reopening of Computational Biologist position at Genentech
Infrastructure PROcess Infrastructure PROcess
12.3 years ago Michael Lawrence ★ 11k
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1.9k
views
about running gsva on mac
PROcess GSVA PROcess GSVA
updated 12.3 years ago by ▴ 200 • written 12.3 years ago by ▴ 230
651 results • Page 2 of 14
Recent ...
Replies
Comment: Issues with downloading biomaRt - SeqInfo and S4 Vectors by James W. MacDonald 68k
Note that `S4Vectors` contains source code, so you will also need to [install RTools first][1]. [1]: https://cran.r-project.org/bin/win…
Answer: Issues with downloading biomaRt - SeqInfo and S4 Vectors by shepherl 4.2k
Our windows binaries are currently lagging behind as we are currently do not have a windows builder. If you are on windows you can try ins…
Comment: Issues with downloading biomaRt - SeqInfo and S4 Vectors by shepherl 4.2k
Can you please provide your `sessionInfo()` after doing `library("S4Vectors")`
Comment: VariantAnnotation does escape = within header string quotes by Daniel Cameron ▴ 40
I'm just stripping the entire line as a workaround using `meta(header(vcf))$DRAGENCommandLine = NULL`. Not ideal but at least subsequent pa…
Comment: Setting up a DESeq2 Design with Paired Data by Alexander • 0
Hi Kevin, Firstly, thank you so much for not only a very prompt response, but one that is incredibly insightful and helps me learn DESeq2 …
Votes
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
Awards • All
Scholar to shepherl 4.2k
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