Showing : Cancer • reset
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738
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BioC2012: upcoming deadlines
Cancer Cancer
13.4 years ago Martin Morgan 25k
0
votes
2
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902
views
[ChIPpeakAnno] Can not start ChIPpeakAnno after update to version 2.5.9
GO Cancer GO Cancer
updated 13.4 years ago by ★ 8.2k • written 13.4 years ago by 25k
0
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3
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3.0k
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Is it possible to read in Bluefuse and Agilent files together using read.maimages() function in limma?
Cancer Cancer
updated 13.4 years ago by 53k • written 13.4 years ago by ▴ 40
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1
reply
4.2k
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samtools error
Cancer convert Cancer convert
updated 13.4 years ago by ▴ 330 • written 13.4 years ago by ▴ 390
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1
reply
884
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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 13.4 years ago by ★ 13k • written 13.4 years ago by ▴ 370
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0
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1.3k
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build/check reports for ENVISIONQuery, IdMappingRetrieval on OSX
Cancer RWebServices SJava CoGAPS CRImage Rsubread Cancer RWebServices SJava CoGAPS
13.4 years ago Day, Roger S ▴ 60
0
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0
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1.0k
views
aCGH package. Plots: X axis label problems
aCGH Cancer aCGH aCGH Cancer aCGH
13.4 years ago Sarah JugurnauthLittle ▴ 20
0
votes
13
replies
2.6k
views
PWMscoreStartingAt and ambiguous subject seqs
Cancer Biostrings GLAD Cancer Biostrings GLAD
updated 13.4 years ago by 16k • written 13.4 years ago by ▴ 740
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0
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995
views
ChIPpeakAnno annotatePeakInBatch
Cancer Cancer
13.4 years ago Julie Zhu ★ 4.3k
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9
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2.4k
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necessity of moderated t statistic and false discoveries for small predefined gene list?
Cancer affy limma Cancer affy limma
updated 13.4 years ago by ▴ 260 • written 13.4 years ago by ★ 2.0k
0
votes
1
reply
864
views
BSgenome packages for ce10 and panTro3 (was Re: BSgenome.Celegans.UCSC.cd10 for WS220)
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
updated 13.4 years ago by ★ 4.3k • written 13.4 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 13.4 years ago by ▴ 30 • written 13.4 years ago by 16k
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2
replies
1.3k
views
FW: miRNA annotation
miRNA Annotation GO Cancer miRNA Annotation GO Cancer
updated 13.4 years ago by 68k • written 13.4 years ago by ▴ 70
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2
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1.2k
views
Re-send directly to BioC on miRNA annoation
miRNA Annotation Cancer miRNA Annotation Cancer
updated 13.4 years ago by ★ 6.8k • written 13.4 years ago by ▴ 70
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0
replies
1.2k
views
Question regarding MADE4 graphs
Cancer made4 Cancer made4
13.4 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 13.5 years ago by ▴ 210 • written 13.5 years ago by ▴ 20
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0
replies
1.1k
views
Help strange GSEA error
Cancer Cancer
13.5 years ago Martin Morgan 25k
0
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0
replies
656
views
combining hgu133a and hgu133b
Cancer cdf Cancer cdf
13.5 years ago Steve Lianoglou ★ 13k
0
votes
4
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4.3k
views
supervised & unsupervised analysis of samples of microarray data
Cancer Cancer
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 200
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0
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895
views
DESeq error thrown during estimateDispersions w/ coxReid method
Cancer DEXSeq Cancer DEXSeq
13.5 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 13.5 years ago by ★ 4.2k • written 13.5 years ago by ▴ 370
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1
reply
1.9k
views
Some particulars about rtracklayer::liftOver
Cancer rtracklayer Cancer rtracklayer
updated 13.5 years ago by ★ 11k • written 13.5 years ago by ★ 13k
0
votes
3
replies
1.8k
views
Gene-gene interaction analysis
Cancer Cancer
updated 13.5 years ago by ▴ 420 • written 13.5 years ago by ▴ 130
0
votes
7
replies
1.7k
views
distanceToNearest for GRanges?
Cancer GenomicRanges Cancer GenomicRanges
updated 13.5 years ago by ▴ 420 • written 13.5 years ago by ★ 6.8k
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votes
2
replies
1.9k
views
Calculating alignment scores from aligned sequences
Alignment Cancer Biostrings Alignment Cancer Biostrings
updated 13.5 years ago by ★ 11k • written 13.5 years ago by ★ 13k
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3
replies
1.2k
views
Parallelizing Biostrings::pairwiseAlignment locally with multicore::mclapply problems?
Cancer Cancer
13.5 years ago Steve Lianoglou ★ 13k
0
votes
0
replies
1.6k
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
13.5 years ago Malcolm Cook ★ 1.6k
0
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1
reply
1.0k
views
Question about using lumi package
Cancer lumi Cancer lumi
updated 13.5 years ago by ▴ 440 • written 13.5 years ago by ▴ 10
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0
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1.3k
views
Bioconductor Digest, Vol 110, Issue 11
Normalization Cancer lumi methylumi Normalization Cancer lumi methylumi
13.5 years ago Pan Du ▴ 440
0
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1
reply
1.8k
views
Errors for estimateGLMTrendedDisp and estimateGLMCommonDisp functions in the edgeR package
Cancer edgeR Cancer edgeR
updated 13.5 years ago by 53k • written 13.5 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
13.5 years ago Martin Morgan 25k
0
votes
0
replies
889
views
oligonucleotideTransitions from Biostrings package
Cancer Biostrings Cancer Biostrings
13.5 years ago Hervé Pagès 16k
1
vote
3
replies
1.3k
views
distanceToNearest for GRanges?
Cancer Cancer
updated 13.6 years ago by ★ 1.6k • written 13.6 years ago by ▴ 740
0
votes
8
replies
2.2k
views
Problems using arrayQualityMetrics
Cancer arrayQualityMetrics Cancer arrayQualityMetrics
13.6 years ago Rosalind Cutts ▴ 20
0
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0
replies
1.4k
views
JOB: Research Associate in Statistical Epigenomics (London)
Cancer Ovarian PROcess Cancer Ovarian PROcess
13.6 years ago Andrew Teschendorff ▴ 60
0
votes
6
replies
1.9k
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 13.6 years ago by ▴ 660 • written 13.6 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
13.6 years ago Matthew Young ▴ 50
0
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0
replies
1.1k
views
post-doctoral position
Cancer Cancer
13.6 years ago Day, Roger S ▴ 60
0
votes
1
reply
872
views
Intersecting two chromosomal ranges but keeping the unique ones
Cancer Cancer
updated 13.6 years ago by ▴ 130 • written 13.6 years ago by ★ 13k
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5
replies
1.4k
views
A few Q's on using DEXSeq with mucho data
Cancer DEXSeq Cancer DEXSeq
updated 13.6 years ago by ★ 3.8k • written 13.6 years ago by ★ 13k
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3
replies
1.8k
views
homopolymer gap extension penalty in Biostrings
Sequencing Alignment GO Cancer Sequencing Alignment GO Cancer
updated 13.6 years ago by ▴ 10 • written 13.6 years ago by 16k
0
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0
replies
843
views
report a possible bug of
Cancer ShortRead Cancer ShortRead
13.6 years ago Martin Morgan 25k
0
votes
1
reply
1.0k
views
countOverlaps within Mode Counting
Cancer Cancer
updated 13.6 years ago by ★ 1.6k • written 13.6 years ago by ★ 6.8k
0
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0
replies
1.2k
views
PostForm() with KEGG
GO Cancer KEGGSOAP GO Cancer KEGGSOAP
13.6 years ago Voke AO ▴ 760
0
votes
3
replies
6.3k
views
how to get gene list for given GO terms?
Pathways GO Cancer PROcess goTools genomes Pathways GO Cancer PROcess goTools genomes
updated 3.3 years ago by • 0 • written 13.6 years ago by ★ 7.2k
0
votes
0
replies
1.0k
views
cutoff for NUSE plot in oligo
Cancer Cancer
13.6 years ago Richard Friedman ★ 2.0k
0
votes
0
replies
733
views
adding factors to a data frame from a dataframe
GO Cancer GO Cancer
13.6 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
13.6 years ago Benjamin Otto ▴ 830
0
votes
0
replies
1.0k
views
making use of the Apis mellifera BeeBase assembly 4 data in goseq
Annotation GO Cancer Apis mellifera BSgenome Biostrings BSgenome rtracklayer goseq GO
13.6 years ago Alicia Oshlack ▴ 100
0
votes
0
replies
984
views
making use of the Apis mellifera BeeBase assembly 4 data in goseq
Annotation GO Cancer BSgenome Biostrings BSgenome rtracklayer GenomicFeatures goseq GO
13.6 years ago Hervé Pagès 16k
1,555 results • Page 9 of 32
Recent ...
Replies
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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