Showing : Cancer • reset
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747
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BioC2012: upcoming deadlines
Cancer Cancer
13.5 years ago Martin Morgan 25k
0
votes
2
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942
views
[ChIPpeakAnno] Can not start ChIPpeakAnno after update to version 2.5.9
GO Cancer GO Cancer
updated 13.5 years ago by ★ 8.2k • written 13.5 years ago by 25k
0
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3
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3.2k
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Is it possible to read in Bluefuse and Agilent files together using read.maimages() function in limma?
Cancer Cancer
updated 13.5 years ago by 53k • written 13.5 years ago by ▴ 40
0
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1
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4.3k
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samtools error
Cancer convert Cancer convert
updated 13.5 years ago by ▴ 330 • written 13.5 years ago by ▴ 390
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1
reply
903
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how to load RangedData for all chromosomes in one tab in UCSC browser using browserView from rtracklayer
GO Cancer rtracklayer GO Cancer rtracklayer
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 370
0
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0
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1.4k
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build/check reports for ENVISIONQuery, IdMappingRetrieval on OSX
Cancer RWebServices SJava CoGAPS CRImage Rsubread Cancer RWebServices SJava CoGAPS
13.5 years ago Day, Roger S ▴ 60
0
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0
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1.1k
views
aCGH package. Plots: X axis label problems
aCGH Cancer aCGH aCGH Cancer aCGH
13.5 years ago Sarah JugurnauthLittle ▴ 20
0
votes
13
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2.7k
views
PWMscoreStartingAt and ambiguous subject seqs
Cancer Biostrings GLAD Cancer Biostrings GLAD
updated 13.5 years ago by 16k • written 13.5 years ago by ▴ 740
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0
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1.0k
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ChIPpeakAnno annotatePeakInBatch
Cancer Cancer
13.6 years ago Julie Zhu ★ 4.3k
0
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9
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2.5k
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necessity of moderated t statistic and false discoveries for small predefined gene list?
Cancer affy limma Cancer affy limma
updated 13.6 years ago by ▴ 260 • written 13.6 years ago by ★ 2.0k
0
votes
1
reply
896
views
BSgenome packages for ce10 and panTro3 (was Re: BSgenome.Celegans.UCSC.cd10 for WS220)
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
updated 13.6 years ago by ★ 4.3k • written 13.6 years ago by 16k
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2
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1.2k
views
question about BSgenome and C.pombe genome, absent in USCS
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
updated 13.6 years ago by ▴ 30 • written 13.6 years ago by 16k
0
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2
replies
1.3k
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FW: miRNA annotation
miRNA Annotation GO Cancer miRNA Annotation GO Cancer
updated 13.6 years ago by 68k • written 13.6 years ago by ▴ 70
0
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2
replies
1.2k
views
Re-send directly to BioC on miRNA annoation
miRNA Annotation Cancer miRNA Annotation Cancer
updated 13.6 years ago by ★ 6.8k • written 13.6 years ago by ▴ 70
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0
replies
1.2k
views
Question regarding MADE4 graphs
Cancer made4 Cancer made4
13.6 years ago Aedin Culhane ▴ 510
0
votes
1
reply
1.9k
views
Copy Number Analysis across multiple SNP array plaforms
SNP Cancer crlmm ffpe SNP Cancer crlmm ffpe
updated 13.6 years ago by ▴ 210 • written 13.6 years ago by ▴ 20
0
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0
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1.2k
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Help strange GSEA error
Cancer Cancer
13.6 years ago Martin Morgan 25k
0
votes
0
replies
677
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combining hgu133a and hgu133b
Cancer cdf Cancer cdf
13.6 years ago Steve Lianoglou ★ 13k
0
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4
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4.3k
views
supervised & unsupervised analysis of samples of microarray data
Cancer Cancer
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 200
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0
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912
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DESeq error thrown during estimateDispersions w/ coxReid method
Cancer DEXSeq Cancer DEXSeq
13.6 years ago Steve Lianoglou ★ 13k
0
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1
reply
1.7k
views
FW: Overlay Gene Expression on SNP (copy number) data
SNP Coverage Network Cancer TranscriptDb IRanges RCytoscape ggbio Gviz SNP Coverage
updated 13.6 years ago by ★ 4.2k • written 13.6 years ago by ▴ 370
0
votes
1
reply
1.9k
views
Some particulars about rtracklayer::liftOver
Cancer rtracklayer Cancer rtracklayer
updated 13.6 years ago by ★ 11k • written 13.6 years ago by ★ 13k
0
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3
replies
1.8k
views
Gene-gene interaction analysis
Cancer Cancer
updated 13.6 years ago by ▴ 420 • written 13.6 years ago by ▴ 130
0
votes
7
replies
1.7k
views
distanceToNearest for GRanges?
Cancer GenomicRanges Cancer GenomicRanges
updated 13.6 years ago by ▴ 420 • written 13.7 years ago by ★ 6.8k
0
votes
2
replies
2.0k
views
Calculating alignment scores from aligned sequences
Alignment Cancer Biostrings Alignment Cancer Biostrings
updated 13.6 years ago by ★ 11k • written 13.6 years ago by ★ 13k
0
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3
replies
1.3k
views
Parallelizing Biostrings::pairwiseAlignment locally with multicore::mclapply problems?
Cancer Cancer
13.6 years ago Steve Lianoglou ★ 13k
0
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0
replies
1.7k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt genomes Cancer Organism biomaRt genomes
13.7 years ago Malcolm Cook ★ 1.6k
0
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1
reply
1.1k
views
Question about using lumi package
Cancer lumi Cancer lumi
updated 13.7 years ago by ▴ 440 • written 13.7 years ago by ▴ 10
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0
replies
1.3k
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Bioconductor Digest, Vol 110, Issue 11
Normalization Cancer lumi methylumi Normalization Cancer lumi methylumi
13.7 years ago Pan Du ▴ 440
0
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1
reply
1.9k
views
Errors for estimateGLMTrendedDisp and estimateGLMCommonDisp functions in the edgeR package
Cancer edgeR Cancer edgeR
updated 13.7 years ago by 53k • written 13.7 years ago by ▴ 40
0
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1
reply
1.2k
views
Course: R / Bioconductor for High-Throughput Sequence Analysis
Annotation Cancer genomes Annotation Cancer genomes
13.7 years ago Martin Morgan 25k
0
votes
0
replies
908
views
oligonucleotideTransitions from Biostrings package
Cancer Biostrings Cancer Biostrings
13.7 years ago Hervé Pagès 16k
1
vote
3
replies
1.4k
views
distanceToNearest for GRanges?
Cancer Cancer
updated 13.7 years ago by ★ 1.6k • written 13.7 years ago by ▴ 740
0
votes
8
replies
2.3k
views
Problems using arrayQualityMetrics
Cancer arrayQualityMetrics Cancer arrayQualityMetrics
13.7 years ago Rosalind Cutts ▴ 20
0
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0
replies
1.5k
views
JOB: Research Associate in Statistical Epigenomics (London)
Cancer Ovarian PROcess Cancer Ovarian PROcess
13.7 years ago Andrew Teschendorff ▴ 60
0
votes
6
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2.0k
views
[Hinxton #251937] RE: GenomicFeatures::makeTranscriptDbFromBiomart - BioMart data anomaly: for some transcripts, the cds cumulative length inferred f…
Cancer Organism biomaRt GenomicFeatures genomes Cancer Organism biomaRt GenomicFeatures
updated 13.7 years ago by ▴ 660 • written 13.7 years ago by 16k
0
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0
replies
1.5k
views
making use of the Apis mellifera BeeBase assembly 4 data in goseq
Annotation GO Cancer Apis mellifera BSgenome Biostrings Category BSgenome rtracklayer GO
13.7 years ago Matthew Young ▴ 50
0
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0
replies
1.2k
views
post-doctoral position
Cancer Cancer
13.7 years ago Day, Roger S ▴ 60
0
votes
1
reply
908
views
Intersecting two chromosomal ranges but keeping the unique ones
Cancer Cancer
updated 13.7 years ago by ▴ 130 • written 13.7 years ago by ★ 13k
0
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5
replies
1.4k
views
A few Q's on using DEXSeq with mucho data
Cancer DEXSeq Cancer DEXSeq
updated 13.7 years ago by ★ 3.8k • written 13.7 years ago by ★ 13k
0
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3
replies
1.8k
views
homopolymer gap extension penalty in Biostrings
Sequencing Alignment GO Cancer Sequencing Alignment GO Cancer
updated 13.8 years ago by ▴ 10 • written 13.8 years ago by 16k
0
votes
0
replies
864
views
report a possible bug of
Cancer ShortRead Cancer ShortRead
13.8 years ago Martin Morgan 25k
0
votes
1
reply
1.0k
views
countOverlaps within Mode Counting
Cancer Cancer
updated 13.8 years ago by ★ 1.6k • written 13.8 years ago by ★ 6.8k
0
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0
replies
1.2k
views
PostForm() with KEGG
GO Cancer KEGGSOAP GO Cancer KEGGSOAP
13.8 years ago Voke AO ▴ 760
0
votes
3
replies
6.4k
views
how to get gene list for given GO terms?
Pathways GO Cancer PROcess goTools genomes Pathways GO Cancer PROcess goTools genomes
updated 3.4 years ago by • 0 • written 13.8 years ago by ★ 7.2k
0
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0
replies
1.0k
views
cutoff for NUSE plot in oligo
Cancer Cancer
13.8 years ago Richard Friedman ★ 2.0k
0
votes
0
replies
755
views
adding factors to a data frame from a dataframe
GO Cancer GO Cancer
13.8 years ago Tom Keller ▴ 70
0
votes
0
replies
1.4k
views
Updated affy package? ReadAffy/ AffyBatch has changed and breaks my pipeline!
Cancer cdf probe affy gcrma AnnotationDbi Cancer cdf probe affy gcrma AnnotationDbi
13.8 years ago Benjamin Otto ▴ 830
0
votes
0
replies
1.1k
views
making use of the Apis mellifera BeeBase assembly 4 data in goseq
Annotation GO Cancer Apis mellifera BSgenome Biostrings BSgenome rtracklayer goseq GO
13.8 years ago Alicia Oshlack ▴ 100
0
votes
0
replies
1.0k
views
making use of the Apis mellifera BeeBase assembly 4 data in goseq
Annotation GO Cancer BSgenome Biostrings BSgenome rtracklayer GenomicFeatures goseq GO
13.8 years ago Hervé Pagès 16k
1,555 results • Page 9 of 32
Recent ...
Replies
Comment: GOseq Probability Weight Function bad fit by ejasge.r.m • 0
When performing GO analysis with GOseq, i s important to carefully check your input and assumptions, just like reviewing choices on the McD…
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
Votes
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Awards • All
Commentator to sina.nassiri ▴ 130
Popular Question to Hervé Pagès 16k
Popular Question to jared.andrews07 ▴ 30
Popular Question to James W. MacDonald 68k
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