Showing : BSGenome • reset
0
votes
2
replies
1.2k
views
question about BSgenome and C.pombe genome, absent in USCS
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
updated 13.5 years ago by ▴ 30 • written 13.5 years ago by 16k
0
votes
1
reply
1.0k
views
BSgenomes and protein sequences
BSgenome BSgenome BSgenome BSgenome
updated 13.5 years ago by ★ 6.8k • written 13.5 years ago by ▴ 30
0
votes
17
replies
3.5k
views
problems with strand in predictCoding
VariantAnnotation Annotation BSgenome BSgenome VariantAnnotation VariantAnnotation BSgenome
updated 13.6 years ago by ▴ 20 • written 13.6 years ago by ▴ 50
0
votes
2
replies
652
views
BSgenome.Celegans.UCSC.cd10 for WS220
BSgenome BSgenome BSgenome BSgenome
updated 13.6 years ago by 16k • written 13.6 years ago by ★ 4.3k
0
votes
3
replies
1.7k
views
Complementing alleles in a VCF
VariantAnnotation BSgenome BSgenome genomes VariantAnnotation VariantAnnotation BSgenome
updated 13.6 years ago by 25k • written 13.6 years ago by ▴ 650
0
votes
1
reply
1.3k
views
VariantAnnotation locateVariants - meaning of precedesID and followsID
BSgenome TranscriptDb BSgenome GenomicFeatures BSgenome TranscriptDb BSgenome
updated 13.6 years ago by ★ 6.8k • written 13.6 years ago by ▴ 80
0
votes
0
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803
views
question about BSgenome and C.pombe genome, absent in USCS
BSgenome BSgenome BSgenome BSgenome
13.6 years ago Zybaylov, Boris L ▴ 30
0
votes
2
replies
1.5k
views
Finding coding SNPs with predictCoding
SNP Annotation BSgenome ctc BSgenome cycle genomes SNP Annotation BSgenome ctc BSgenome
updated 13.6 years ago by ★ 1.7k • written 13.6 years ago by ★ 6.8k
0
votes
2
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1.3k
views
curious IRanges error when sort()ing a GRanges
GO BSgenome BSgenome GenomicRanges GO BSgenome BSgenome GenomicRanges
updated 13.6 years ago by 16k • written 13.6 years ago by ★ 4.2k
0
votes
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
votes
4
replies
2.1k
views
easyRNASeq error
Sequencing Alignment Annotation Organism BSgenome biomaRt BSgenome easyRNASeq Sequencing
13.7 years ago delhomme@embl.de ★ 1.2k
0
votes
4
replies
1.9k
views
Finding coding SNPs with predictCoding
SNP VariantAnnotation BSgenome SNPlocs BSgenome VariantAnnotation SNP VariantAnnotation
updated 13.7 years ago by ★ 6.8k • written 13.7 years ago by ▴ 650
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
13.7 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
13.7 years ago Hervé Pagès 16k
0
votes
0
replies
2.0k
views
Deferential gene expression databases
Microarray Genetics Annotation Normalization Pathways GO Cancer BSgenome probe annotate
13.7 years ago saikouy bah ▴ 30
0
votes
2
replies
1.9k
views
ChIPpeakAnno
GO BSgenome annotate BSgenome ChIPpeakAnno GO BSgenome annotate BSgenome ChIPpeakAnno
updated 13.7 years ago by ▴ 10 • written 13.7 years ago by ▴ 10
0
votes
13
replies
3.2k
views
How to plot NGS data?
GO BSgenome geneplotter PROcess BSgenome genomes GO BSgenome geneplotter PROcess genomes
updated 13.8 years ago by 25k • written 13.8 years ago by ▴ 30
0
votes
2
replies
2.2k
views
BSgenome installation error
BSgenome BSgenome BSgenome BSgenome
updated 13.8 years ago by 16k • written 13.8 years ago by ▴ 240
0
votes
0
replies
1.3k
views
using easyRNASeq examples
RNASeq Annotation BSgenome convert biomaRt BSgenome IRanges DESeq easyRNASeq RNASeq
13.8 years ago delhomme@embl.de ★ 1.2k
0
votes
5
replies
1.8k
views
easyRNASeq - error reading single chromosome bam
RNASeq Alignment BSgenome BSgenome RNASeq Alignment BSgenome BSgenome
updated 13.8 years ago by ★ 1.2k • written 13.8 years ago by ▴ 380
0
votes
0
replies
1.0k
views
VariantAnnotation updated - error in predictCoding
BSgenome BSgenome BSgenome BSgenome
13.8 years ago Lescai, Francesco ▴ 380
0
votes
2
replies
1.2k
views
VariantAnnotation updated - error in predictCoding
BSgenome BSgenome BSgenome BSgenome
updated 13.8 years ago by ★ 6.8k • written 13.8 years ago by ▴ 380
0
votes
1
reply
1.2k
views
rtracklayer error
SNP BSgenome BSgenome rtracklayer SNP BSgenome BSgenome rtracklayer
updated 13.8 years ago by ★ 11k • written 13.8 years ago by ▴ 380
0
votes
1
reply
1.2k
views
intragenic sequence extraction
Annotation Cancer Organism BSgenome BSgenome GenomicFeatures Annotation Cancer Organism
updated 14.0 years ago by ★ 13k • written 14.0 years ago by ▴ 90
0
votes
1
reply
1.3k
views
custom SNPlocs / BSgenome package
SNP Annotation Organism Homo sapiens BSgenome SNPlocs BSgenome SNP Annotation Organism
updated 14.0 years ago by 16k • written 14.0 years ago by ▴ 100
0
votes
1
reply
871
views
custom SNPlocs / BSgenome package
BSgenome BSgenome BSgenome BSgenome
updated 14.0 years ago by ★ 6.8k • written 14.0 years ago by ▴ 100
0
votes
1
reply
1.0k
views
Addition of Orangutan genome to BSgenomes
Genetics BSgenome BSgenome genomes Genetics BSgenome BSgenome genomes
updated 14.0 years ago by ★ 6.8k • written 14.0 years ago by ▴ 10
0
votes
0
replies
991
views
Fwd: extract introns
Cancer Organism BSgenome BSgenome Cancer Organism BSgenome BSgenome
14.0 years ago Steve Lianoglou ★ 13k
0
votes
3
replies
2.1k
views
Repitools/ClusterPlots
BSgenome BSgenome Repitools BSgenome BSgenome Repitools
updated 14.0 years ago by ▴ 580 • written 14.0 years ago by ★ 13k
0
votes
0
replies
1.1k
views
liftOver() issues
BSgenome BSgenome BSgenome BSgenome
14.1 years ago Tim Triche ★ 4.2k
0
votes
0
replies
834
views
BSgenome package for sacCer3
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
14.1 years ago Hervé Pagès 16k
0
votes
2
replies
1.9k
views
(BSgenome) forgeBSgenomeDataPkg for Sus scrofa problem
Sus scrofa BSgenome BSgenome Sus scrofa BSgenome BSgenome
updated 14.1 years ago by 16k • written 14.1 years ago by ▴ 160
0
votes
3
replies
1.9k
views
HowTo: "Extract masked sequences" / "insert Ns for repeat masked regions"
GO BSgenome BSgenome GO BSgenome BSgenome
updated 14.2 years ago by 16k • written 14.2 years ago by ★ 1.6k
0
votes
2
replies
2.7k
views
Biobase use problem
BSgenome BSgenome BSgenome BSgenome
updated 14.2 years ago by 21k • written 14.2 years ago by ▴ 30
0
votes
1
reply
1.0k
views
[Bioc-sig-seq] ChIPpeakAnno annotatePeakInBatch problems in R2.13/ChIPpeakAnno_1.8.0 and R2.13/ChIPpeakAnno_2.0.2
Annotation GO BSgenome BSgenome ChIPpeakAnno Annotation GO BSgenome BSgenome ChIPpeakAnno
14.2 years ago Julie Zhu ★ 4.3k
0
votes
4
replies
2.1k
views
Extarcting large number of sequences using BSgenome package
BSgenome BSgenome BSgenome BSgenome
updated 14.3 years ago by 16k • written 14.3 years ago by ▴ 580
0
votes
5
replies
1.6k
views
Faster way to apply a function than endoapply on 40K GrangesList
BSgenome BSgenome BSgenome BSgenome
updated 14.3 years ago by 25k • written 14.3 years ago by ▴ 250
0
votes
1
reply
1.2k
views
Chippeakanno venn
GO BSgenome annotate BSgenome GO BSgenome annotate BSgenome
updated 14.3 years ago by ★ 4.3k • written 14.3 years ago by ▴ 90
0
votes
7
replies
2.4k
views
error in bayespeak function
ChIPSeq GO BSgenome BSgenome chipseq BayesPeak ChIPSeq GO BSgenome BSgenome chipseq
updated 14.3 years ago by ▴ 130 • written 14.3 years ago by ▴ 810
0
votes
0
replies
910
views
BSgenome package - danRer7 genome assembly
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
14.4 years ago Hervé Pagès 16k
0
votes
0
replies
684
views
BSgenome package - danRer7 genome assembly
BSgenome BSgenome BSgenome BSgenome
14.4 years ago Brett Maricque ▴ 10
0
votes
0
replies
1.5k
views
Using ChIPpeakAnno on a non-mainstream organism
Transcription Annotation GO AnnotationData Organism BSgenome biomaRt BSgenome ChIPpeakAnno
14.6 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
1.2k
views
Whole genome searching of 100bp "D" sequence
Alignment BSgenome BSgenome Alignment BSgenome BSgenome
14.6 years ago Amos Folarin ▴ 80
0
votes
2
replies
1.4k
views
How Does one subset a XStringView or PDict object?
Transcription BSgenome Biostrings BSgenome Transcription BSgenome Biostrings BSgenome
updated 14.8 years ago by 25k • written 14.8 years ago by ▴ 410
0
votes
13
replies
3.5k
views
forge BSgenome data package
BSgenome Biostrings BSgenome BSgenome Biostrings BSgenome
updated 14.8 years ago by 16k • written 14.8 years ago by ▴ 330
0
votes
0
replies
641
views
BSgenome package for Stickleback
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
14.8 years ago Hervé Pagès 16k
0
votes
2
replies
1.9k
views
BSgenome package for a. thaliana
BSgenome BSgenome BSgenome BSgenome
updated 14.9 years ago by 16k • written 14.9 years ago by ▴ 20
0
votes
2
replies
1.2k
views
rtracklayer issues with other packages?
GO Cancer BSgenome graph Biostrings GOstats BSgenome rtracklayer GO Cancer BSgenome
updated 15.0 years ago by ★ 11k • written 15.0 years ago by ▴ 200
0
votes
1
reply
1.0k
views
Localizing repetitive regions on a chromosome
BSgenome biomaRt BSgenome rtracklayer BSgenome biomaRt BSgenome rtracklayer
updated 15.0 years ago by ★ 11k • written 15.0 years ago by ▴ 500
0
votes
3
replies
1.3k
views
rtracklayer -- how to hide some default tracks? fine-grained control of track view mode (pack, full, dense, squish...)
BSgenome BSgenome BSgenome BSgenome
updated 15.1 years ago by ★ 11k • written 15.1 years ago by ★ 1.1k
349 results • Page 6 of 7
Recent ...
Replies
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif by Matthew Thornton ▴ 380
WOW! Thank you so much for the information. I will do this.
Comment: "Watched Tags" are being erased rather than updated by RalphSavage99 • 0
Thanks for sharing https://github.com/Bioconductor/support.bioconductor.org/issues/112
Answer: Add additional maintainer for MOFA2 by shepherl 4.2k
These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Votes
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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