Showing : BSgenome • reset
2
votes
2
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1.7k
views
BSgenome package building
bsgenome
updated 6.9 years ago by 68k • written 6.9 years ago by • 0
3
votes
5
replies
2.5k
views
Include and implement a new reference genome option in the R package BSgenome for downstream variant calling analysis
bsgenome variant calling whole exome sequence gencode reference genome
updated 7.0 years ago by 16k • written 7.0 years ago by ▴ 840
0
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5
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1.6k
views
Custom BSgenome with makeTxDbFromGFF
bsgenome genomicfeatures
7.1 years ago michael.weber.1 • 0
6
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3
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3.5k
views
News: New Bioconductor package for dbSNP151
SNPlocs.Hsapiens.dbSNP151.GRCh38 BSgenome News
7.2 years ago Hervé Pagès 16k
0
votes
1
reply
1.3k
views
extract codon position via BSgenome
bsgenome
updated 7.2 years ago by 16k • written 7.2 years ago by • 0
1
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12
replies
5.3k
views
error in loadFun(x,seqname,ranges). BSgenome.Hsapiens.UCSC.hg19
bsgenome
updated 7.3 years ago by 68k • written 7.3 years ago by ▴ 10
1
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6
replies
2.6k
views
MEDIP: Problem with MEDIPS.createSet
medips bsgenome medip-seq
updated 7.5 years ago by ▴ 570 • written 7.5 years ago by • 0
2
votes
3
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2.9k
views
What's the best way to retrieve the sizes (lengths) of chromosomes for a reference genome assembly?
bsgenome chromosome reference genome
updated 7.5 years ago by 16k • written 7.5 years ago by ▴ 10
2
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1
reply
1.4k
views
Using 'BSgenome::export' to write each chromosome of an organism into separate files
bsgenome biocgenerics bsapply export
updated 7.5 years ago by 68k • written 7.5 years ago by • 0
0
votes
1
reply
2.3k
views
How to name the custom genome in karyoploteR ?
software error R bsgenome karyoploter
updated 7.8 years ago by ▴ 150 • written 7.8 years ago by ▴ 20
0
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1
reply
1.4k
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add new genome as Bsgenome object
bsgenome
updated 8.0 years ago by 25k • written 8.0 years ago by • 0
0
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2
replies
1.4k
views
BSgenome.Dmelanogaster.UCSC.dm6 annotation issue
bsgenome BSgenome.Dmelanogaster.UCSC.dm6
8.0 years ago jbeira • 0
1
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3
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2.5k
views
BSgenome Sscrofa 11.1
sus scrofa bsgenome
updated 8.0 years ago by 25k • written 8.0 years ago by • 0
4
votes
1
reply
2.0k
views
Getting "negative length vectors are not allowed" error in BSgenome::getSeq
BSgenome getSeq
updated 8.1 years ago by 25k • written 8.1 years ago by ▴ 110
4
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3
replies
2.1k
views
Extracting sequences from BSgenomeViews object
sequence bsgenome
updated 8.1 years ago by 25k • written 8.1 years ago by ▴ 10
0
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2
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2.4k
views
add annotation features to BSgenome or txdb package
bsgenome txdb annotation orgdb
8.1 years ago Didi ▴ 10
2
votes
5
replies
2.9k
views
Forge a BSgenome data package
bsgenome bsgenome forge
8.6 years ago • updated 8.1 years ago jodiera • 0
1
vote
8
replies
2.3k
views
CRISPRseek with genome not available in BSgenome
bsgenome crisprseek
updated 8.2 years ago by ★ 4.3k • written 8.5 years ago by • 0
0
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2
replies
1.5k
views
Human reference primary assembly and masking using BioStrings and BSgenome
biostrings R bsgenome
8.2 years ago rockyb • 0
5
votes
9
replies
5.0k
views
mm10 phastCons data for use with ATACseqQC
ATACseqQC bsgenome phastcons rtracklayer
updated 8.3 years ago by ★ 1.3k • written 8.3 years ago by ▴ 10
1
vote
7
replies
3.1k
views
Mapping Probes to a Genome
BSgenome biostrings probe mapping
updated 8.3 years ago by ▴ 10 • written 9.0 years ago by ★ 1.6k
0
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4
replies
1.9k
views
BS genome non-model organism
bsgenome
8.6 years ago • updated 8.5 years ago minie • 0
1
vote
2
replies
1.8k
views
Error in BSGenome "getSeq" function
R bsgenome getseq
updated 8.7 years ago by 68k • written 8.7 years ago by • 0
0
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0
replies
1.4k
views
forge masked genome
bsgenome drosophila melanogaster bsgnome forge
8.8 years ago nadia.goue • 0
6
votes
6
replies
2.9k
views
Memory-efficient method to calculate GC content of millions of GRanges
granges biostrings bsapply BSgenome
updated 8.8 years ago by 16k • written 8.8 years ago by ▴ 70
0
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0
replies
876
views
Job: Faculty Position-DATA SCIENCE CLUSTER
bsgenome Job
8.8 years ago isaac • 0
3
votes
2
replies
1.4k
views
Error in XVector while creating a custome BSgenome package
BSgenome
updated 8.9 years ago by ★ 6.6k • written 8.9 years ago by ▴ 10
2
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3
replies
2.4k
views
How to add chromosomes to a BSgenome ?
bsgenome virus
updated 9.0 years ago by 16k • written 9.0 years ago by ▴ 180
0
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1
reply
1.4k
views
SNP Injection in Custom BSGenome
variantannotation bsgenome
updated 9.0 years ago by 16k • written 9.0 years ago by • 0
3
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2
replies
1.4k
views
Match all DNAString Occurences in a BSgenome
bsgenome genomicranges function creation
9.0 years ago ewjwallace ▴ 10
0
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1
reply
1.1k
views
latest R version compatible with BSgenome
bsgenome
updated 9.1 years ago by 25k • written 9.1 years ago by ▴ 60
0
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4
replies
1.7k
views
BSgenome.Osativa.MSU.MSU7 Oryza sativa
bsgenome biostrings
9.2 years ago Didi ▴ 10
2
votes
3
replies
3.6k
views
How to remove aberrant chromosomes from a BSgenome object?
bsgenome r
updated 9.2 years ago by 16k • written 9.2 years ago by • 0
2
votes
1
reply
1.9k
views
export BSgenome directly in gzipped fasta
bsgenome gzip fasta
updated 9.4 years ago by ▴ 90 • written 9.4 years ago by ▴ 80
0
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2
replies
2.1k
views
mutational signatures problems
bsgenome readvcf tcga annotation somaticsignatures
updated 11 months ago by • 0 • written 9.5 years ago by • 0
1
vote
6
replies
2.4k
views
problem creating txdb object and bsgenome for solanum pennellii
bsgenome txdb promoter
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 20
3
votes
6
replies
2.2k
views
installing BSgenome and problems with XML and RCurl packages
bsgenome
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 20
2
votes
4
replies
3.4k
views
getSeq{BSgenome} error: Error in NSBS(i, x, exact = exact, upperBoundIsStrict = !allow.append)
bsgenome rsamtools
9.7 years ago komal.rathi ▴ 120
0
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2
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2.5k
views
BSGenome::getSeq gives error: Error in NSBS(i, x, exact = exact, upperBoundIsStrict = !allow.append)
bsgenome getseq
updated 9.8 years ago by 25k • written 9.8 years ago by • 0
0
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0
replies
1.2k
views
maskedBSgenome - cannot enable masks
mask bsgenome
9.8 years ago kielpinski • 0
3
votes
6
replies
3.1k
views
Assign genes to CpG islands
annotation genomicranges bsgenome
updated 9.9 years ago by ★ 1.3k • written 9.9 years ago by ▴ 10
1
vote
1
reply
1.4k
views
Forge a BSgenome data package
bsgenome biostrings Gviz
updated 9.9 years ago by 16k • written 10.0 years ago by ▴ 40
0
votes
1
reply
2.0k
views
Problem installing BSgenome. Error : .onLoad failed in loadNamespace() for 'BSgenome.Drerio.UCSC.danRer7'
bsgenome
updated 10.0 years ago by 25k • written 10.0 years ago by • 0
0
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1
reply
1.5k
views
BSgenome.Hsapiens.UCSC.hg19 Sequence missing
bsgenome hg19
updated 10.0 years ago by 25k • written 10.0 years ago by ▴ 250
1
vote
1
reply
2.6k
views
package ‘BSgenome.Hsapiens.UCSC.hg38’ is not available (for R version 3.1.2)
bsgenome hg38 r version 3.1.2
updated 10.0 years ago by 68k • written 10.0 years ago by • 0
1
vote
3
replies
1.8k
views
getBackgroundFrequencies for Arabidopsis
pwmenrich bsgenome
10.0 years ago oliwindram ▴ 10
5
votes
15
replies
4.1k
views
problem with QDNAseq's createBins for new BSgenome package
bsgenome biostrings qdnaseq pfalciparum
updated 10.1 years ago by ▴ 50 • written 10.1 years ago by • 0
2
votes
6
replies
3.1k
views
Working with Arabidopsis Databases
bsgenome biomart getPromoterSeq txdb
10.1 years ago oliwindram ▴ 10
1
vote
2
replies
1.4k
views
Request: Adding danRer10 or GRCz10 to BSgenome
bsgenome
10.1 years ago naluru ▴ 10
2
votes
2
replies
1.8k
views
"Wobble" patterns for genome searching using Biostrings
biostrings bsgenome motif RGYW
10.2 years ago fongchunchan ▴ 30
348 results • Page 2 of 7
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Comment: EuroBioC2024 abstract submission is open! by Finnianfly • 0
What specific requirements should be noted when preparing abstracts for presentation formats such as short talks, package demos, or posters…
Comment: Length of 'dimnames' [1] not equal to array extent by Francesco Silvestro • 0
Resolved the error message!
Comment: WGCNA analysis on RNAseq and proteoimcs data by sum31278 • 0
Hi sagigordon, Can you share how you performed WGCNA analysis for proteomics data? Thanks
Comment: European Bioconductor Conference 2023 planning by inadequate.peacock.iiag • 0
I once faced a dilemma similar to this when coordinating a smaller local event; despite initial hesitation, I learned invaluable skills and…
Comment: ROAST compare results with complex design by Gordon Smyth 52k
It's also worth pointing out that the syntax for `camera` and `mroast` is the same, so I wonder how OP did the earlier `camera` analysis.
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Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
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