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annotation
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0
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1.6k
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Error in virtualArray Please help
Annotation
Preprocessing
Annotation
Preprocessing
11.9 years ago
Manvendra.Singh@mdc-berlin.de
▴ 20
0
votes
1
reply
1.4k
views
Oryza sativa problem
Annotation
convert
Annotation
convert
updated 11.9 years ago by
Nicolas Delhomme
▴ 320 • written 11.9 years ago by
Guest User
★ 13k
0
votes
1
reply
3.1k
views
annotation package for HuEx-1_0-st-v1 platform instead of pd.huex.1.0.st.v1
Microarray
Annotation
hgu133a
hgu133plus2
cdf
Microarray
Annotation
hgu133a
hgu133plus2
updated 11.9 years ago by
cstrato
★ 3.9k • written 11.9 years ago by
Rahmatallah, Yasir
▴ 10
0
votes
0
replies
2.3k
views
Seed file error: RE: BioStrings for current R: RE: BSgenomeForge seed file - seqnames field
Annotation
GO
Cancer
BSgenome
OrganismDb
SNPlocs
TranscriptDb
Biostrings
BSgenome
GO
11.9 years ago
Hervé Pagès
16k
0
votes
0
replies
833
views
What software packages for Affymetrix HTA_2.0
Annotation
probe
Annotation
probe
11.9 years ago
Guest User
★ 13k
0
votes
2
replies
2.3k
views
HGNC annotation for use in GOstats
Annotation
GOstats
Annotation
GOstats
updated 11.9 years ago by
James W. MacDonald
68k • written 11.9 years ago by
Boel Brynedal
▴ 200
0
votes
11
replies
2.9k
views
Complete variant toolbox: gmapR/VariantTools/VariantAnnotation
VariantAnnotation
Annotation
VariantAnnotation
VariantTools
VariantAnnotation
Annotation
updated 11.9 years ago by
Valerie Obenchain
★ 6.8k • written 11.9 years ago by
Thomas Girke
★ 1.7k
0
votes
2
replies
2.5k
views
minfi release 1.8
SNP
Annotation
minfi
bumphunter
SNP
Annotation
minfi
bumphunter
updated 11.9 years ago by
Kasper Daniel Hansen
★ 6.5k • written 11.9 years ago by
Elmar Tobi
▴ 30
0
votes
1
reply
2.7k
views
Meta data for gene from GEO
Annotation
gpls
GEOquery
GEOmetadb
Annotation
gpls
GEOquery
GEOmetadb
updated 11.9 years ago by
Sean Davis
21k • written 12.0 years ago by
rohan bareja
▴ 200
0
votes
5
replies
1.9k
views
Query on ChipPeakAnno: AnnotatePeakinBatch input
Annotation
Cancer
ChIPpeakAnno
Annotation
Cancer
ChIPpeakAnno
updated 11.9 years ago by
Jailwala, Parthav NIH/NCI [C]
▴ 30 • written 11.9 years ago by
Julie Zhu
★ 4.3k
0
votes
1
reply
1.7k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage
Annotation
GO
Cancer
Organism
edgeR
DESeq
GenomicRanges
Rsubread
easyRNASeq
GO
updated 12.0 years ago by
Nicolas Delhomme
▴ 320 • written 12.0 years ago by
Gordon Smyth
53k
0
votes
0
replies
2.1k
views
Fw: Meta data for gene from GEO
Annotation
gpls
GEOquery
GEOmetadb
Annotation
gpls
GEOquery
GEOmetadb
12.0 years ago
rohan bareja
▴ 200
0
votes
1
reply
2.3k
views
Analysis of Affymetrix Human Gene 2.0 ST arrays
Transcription
Annotation
Normalization
GO
hgu133plus2
affy
PROcess
Category
Transcription
updated 12.0 years ago by
Federico Lasa
▴ 80 • written 12.0 years ago by
María Maqueda González
▴ 20
0
votes
0
replies
1.5k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage
Annotation
GO
Cancer
Organism
edgeR
DESeq
GenomicRanges
easyRNASeq
Coverage
GO
12.0 years ago
Nicolas Delhomme
▴ 320
0
votes
4
replies
4.4k
views
Analysis of Affymetrix Human Gene 2.0 ST arrays
Annotation
Normalization
hgu133plus2
affy
PROcess
Category
Annotation
Normalization
affy
updated 12.0 years ago by
James W. MacDonald
68k • written 12.0 years ago by
Guest User
★ 13k
0
votes
0
replies
1.6k
views
zero-row result breaks select() on PolyPhen.Hsapiens.* and SIFT.Hsapiens.*
VariantAnnotation
Annotation
PolyPhen
SIFT
annotate
VariantAnnotation
ensemblVEP
Annotation
12.0 years ago
Valerie Obenchain
★ 6.8k
0
votes
3
replies
2.4k
views
autoplot() error on a GRanges object in ggbio 1.10.8
Annotation
TranscriptDb
Annotation
TranscriptDb
updated 12.0 years ago by
Tengfei Yin
▴ 490 • written 12.0 years ago by
Leonardo Collado Torres
★ 1.1k
0
votes
1
reply
1.5k
views
inconsistency in illuminaHumanv4.db?
Annotation
Annotation
updated 12.0 years ago by
Mark Dunning
★ 1.1k • written 12.0 years ago by
Perry Moerland
▴ 130
0
votes
1
reply
2.5k
views
Affymetrix HTA 2 array analysis
BiocViews
Annotation
Cancer
Breast
Organism
PROcess
biocViews
pdInfoBuilder
BiocViews
updated 12.0 years ago by
Benilton Carvalho
★ 4.3k • written 12.0 years ago by
Stephen Turner
▴ 290
0
votes
4
replies
1.9k
views
retrieving annotation
Annotation
biomaRt
GenomicFeatures
Annotation
biomaRt
GenomicFeatures
updated 12.0 years ago by
Hervé Pagès
16k • written 12.0 years ago by
Kathi Zarnack
▴ 110
0
votes
1
reply
1.8k
views
minfi release 1.8
SNP
Annotation
minfi
bumphunter
SNP
Annotation
minfi
bumphunter
updated 12.0 years ago by
Elmar Tobi
▴ 30 • written 12.0 years ago by
Kasper Daniel Hansen
★ 6.5k
0
votes
7
replies
3.5k
views
GTF file error when using easyRNAseq�
Annotation
Organism
BSgenome
BSgenome
DESeq
easyRNASeq
Annotation
Organism
BSgenome
DESeq
updated 12.0 years ago by
delhomme@embl.de
★ 1.2k • written 12.0 years ago by
Guest User
★ 13k
0
votes
1
reply
1.0k
views
stranded intronic variants with VariantAnnotation::locateVariants()
Annotation
Annotation
updated 12.0 years ago by
Robert Castelo
★ 3.4k • written 12.0 years ago by
Valerie Obenchain
★ 6.8k
0
votes
3
replies
2.1k
views
help with SCAN.UPC and u133aaofav2
Annotation
Annotation
updated 12.0 years ago by
Stephen Piccolo
▴ 600 • written 12.0 years ago by
Juliet Hannah
▴ 360
0
votes
3
replies
3.9k
views
Working with ensembl 73 & BSGenome
Annotation
BSgenome
TranscriptDb
biomaRt
BSgenome
Annotation
BSgenome
TranscriptDb
biomaRt
updated 12.0 years ago by
Hervé Pagès
16k • written 12.0 years ago by
Guest User
★ 13k
0
votes
4
replies
3.6k
views
450k annotation packages compatible version and analysis with blockFinder (minfi)
Annotation
Clustering
convert
minfi
Annotation
Clustering
convert
minfi
updated 12.1 years ago by
Kasper Daniel Hansen
★ 6.5k • written 12.1 years ago by
Florence Cavalli
▴ 50
0
votes
0
replies
1.2k
views
Rsubread segfault
Annotation
PROcess
Rsubread
Annotation
PROcess
Rsubread
12.1 years ago
James W. MacDonald
68k
0
votes
2
replies
1.3k
views
stranded intronic variants with VariantAnnotation::locateVariants()
VariantAnnotation
Annotation
VariantAnnotation
VariantAnnotation
Annotation
VariantAnnotation
updated 12.1 years ago by
Valerie Obenchain
★ 6.8k • written 12.1 years ago by
Robert Castelo
★ 3.4k
0
votes
1
reply
2.8k
views
pathview -- ID Problem?
Annotation
pathview
Annotation
pathview
updated 12.1 years ago by
Luo Weijun
★ 1.6k • written 12.1 years ago by
Guest User
★ 13k
2
votes
5
replies
5.3k
views
Ensembl or Gencode version of TxDb.Hsapiens.UCSC.hg19.knownGene
Annotation
Annotation
updated 12.1 years ago by
James W. MacDonald
68k • written 12.1 years ago by
Adaikalavan Ramasamy
▴ 220
0
votes
2
replies
3.6k
views
Biobase - Error: ExpressionSet
Microarray
Annotation
GO
ExperimentData
Biobase
Microarray
Annotation
GO
ExperimentData
updated 12.1 years ago by
Laurent Gatto
1.6k • written 12.1 years ago by
Lisa Cohen
▴ 50
0
votes
0
replies
993
views
Illumina spike-in probe sequences, lumi
Annotation
probe
Annotation
probe
12.1 years ago
Rohmatul Fajriyah
▴ 190
0
votes
2
replies
1.9k
views
limma_3.17.23 - missing ILMN identifiers in EList objects after read.ilmn
Annotation
Normalization
GO
probe
annotate
Annotation
Normalization
GO
probe
annotate
updated 12.1 years ago by
Wei Shi
★ 3.6k • written 12.1 years ago by
Kemal Akat
▴ 120
0
votes
0
replies
1.2k
views
ChIPpeakAnno Question, regarding BED scores
Annotation
annotate
ChIPpeakAnno
Annotation
annotate
ChIPpeakAnno
12.1 years ago
Julie Zhu
★ 4.3k
0
votes
1
reply
1.1k
views
hgug4845a.db - error in the lookUp function when running genes.rpt.agi
Annotation
hgug4112a
Annotation
hgug4112a
updated 12.1 years ago by
James W. MacDonald
68k • written 12.1 years ago by
Pitea Adriana
▴ 10
0
votes
0
replies
911
views
Reg: makePdInfoPackage Error in sqliteExecStatement(con, statement, bind.data) : bind.data must have non-zero dimensions
Annotation
probe
Annotation
probe
12.1 years ago
Nitesh Turaga
▴ 50
1
vote
1
reply
2.1k
views
Mapping Affymetrix annotations with Bioconductor annotations
Annotation
Organism
zebrafish
cdf
affy
AnnotationForge
Annotation
Organism
zebrafish
cdf
updated 12.1 years ago by
James W. MacDonald
68k • written 12.1 years ago by
Joao Sollari Lopes
▴ 80
2
votes
3
replies
1.6k
views
Creating Annotation package for GPL10427
Annotation
hgu95av2
Annotation
hgu95av2
updated 12.1 years ago by
James W. MacDonald
68k • written 12.1 years ago by
Guest User
★ 13k
0
votes
1
reply
1.3k
views
custom variant AnnotationDbi?
Annotation
SNPlocs
Annotation
SNPlocs
updated 12.1 years ago by
Vincent J. Carey, Jr.
6.7k • written 12.1 years ago by
Lescai, Francesco
▴ 380
0
votes
0
replies
1.3k
views
ka
Annotation
db0
Annotation
db0
12.1 years ago
Guest User
★ 13k
0
votes
0
replies
1.4k
views
[devteam-bioc] Why does a GOAllFrame contain more rows than its argument GoFrame?
Annotation
GO
Organism
AnnotationDbi
Annotation
GO
Organism
AnnotationDbi
12.1 years ago
Marc Carlson
★ 7.2k
0
votes
0
replies
959
views
CANCELED: Boston Bioconductor Basics, Oct 10-11 2013
Annotation
Annotation
12.1 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
0
replies
943
views
Course offering: Boston Bioconductor Basics, Oct 10-11 2013: Tuition cut for early registration
Annotation
Annotation
12.1 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
3
replies
1.6k
views
xps library with mouse gene 1.0 transcript arrays
Annotation
cdf
xps
Annotation
cdf
xps
updated 12.1 years ago by
cstrato
★ 3.9k • written 12.1 years ago by
Assa Yeroslaviz
★ 1.5k
0
votes
4
replies
1.8k
views
zero-row result breaks select() on PolyPhen.Hsapiens.* and SIFT.Hsapiens.*
Annotation
PolyPhen
SIFT
Annotation
PolyPhen
SIFT
updated 12.1 years ago by
Valerie Obenchain
★ 6.8k • written 12.2 years ago by
Robert Castelo
★ 3.4k
0
votes
1
reply
1.6k
views
ChIPpeakAnno, getAnnotation question
Annotation
zebrafish
convert
biomaRt
ChIPpeakAnno
Annotation
zebrafish
convert
biomaRt
updated 12.1 years ago by
Julie Zhu
★ 4.3k • written 12.2 years ago by
Neha Daga
▴ 10
0
votes
1
reply
1.7k
views
ChIPpeakAnno, getAnnotation question
Annotation
GO
zebrafish
convert
biomaRt
ChIPpeakAnno
Annotation
GO
zebrafish
convert
updated 12.2 years ago by
Julie Zhu
★ 4.3k • written 12.2 years ago by
Guest User
★ 13k
0
votes
1
reply
1.7k
views
eayRNASeq with Ensemble GRCh37 help
Annotation
Organism
easyRNASeq
DESeq2
Annotation
Organism
easyRNASeq
DESeq2
updated 12.2 years ago by
delhomme@embl.de
★ 1.2k • written 12.2 years ago by
Aki Hoji
▴ 10
0
votes
0
replies
966
views
Boston Bioconductor Basics, Oct 10-11 2013
Annotation
Annotation
12.2 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
2
replies
2.0k
views
Pathview with non-KEGG organism
Annotation
pathview
Annotation
pathview
updated 12.2 years ago by
Luo Weijun
★ 1.6k • written 12.2 years ago by
Christian De Santis
▴ 150
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Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
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WOW! Thank you so much for the information. I will do this.
Comment: "Watched Tags" are being erased rather than updated
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Thanks for sharing https://github.com/Bioconductor/support.bioconductor.org/issues/112
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These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
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Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
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Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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