Showing : BSgenome • reset
1
vote
5
replies
801
views
Package needs internet access
BSgenome BSgenome.Hsapiens.UCSC.hg38 Offline
updated 9 months ago by 68k • written 9 months ago by ▴ 20
0
votes
4
replies
8.7k
views
Any tools to convert .gff to .gtf format
AnnotationData CrispRdesignR BSgenome
updated 8 months ago by • 0 • written 3.0 years ago by • 0
1
vote
6
replies
1.5k
views
Help creating BSgenome object for new canine and feline genomes?
BSgenome
updated 18 months ago by 68k • written 19 months ago by • 0
2
votes
4
replies
1.3k
views
Need help generating BSgenome and orgdb
OrgDb BSgenome
22 months ago • updated 19 months ago mat149 ▴ 80
1
vote
3
replies
1.3k
views
Using injectSNPs with a custom set of SNPs
SNPlocs BSgenome
written 22 months ago by • 0
0
votes
3
replies
1.3k
views
Get Intron Seq
intron BSgenome.Hsapiens.UCSC.hg38 BSgenome
updated 2.2 years ago by ★ 4.9k • written 2.2 years ago by • 0
0
votes
4
replies
2.8k
views
BSgenome for ensembl mm10
BSgenomeForge BSgenome
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
1
vote
4
replies
1.3k
views
Submitting BSgenome package for a new assembly
bsgenome GenomicFeatures package
updated 2.3 years ago by 16k • written 2.3 years ago by • 0
1
vote
1
reply
829
views
add genome to BSgenome
bsgenome
updated 2.8 years ago by 4.2k • written 2.8 years ago by ▴ 10
2
votes
2
replies
3.2k
views
getSeq failing with DNAStringSet and GRanges
ORFik Bioconductor GenomicRanges Biostrings BSgenome
2.9 years ago Mog • 0
9
votes
5
replies
2.2k
views
karyoploteR genome coverage plotting using BSgenome.TAIR10
BSgenome.Athaliana.TAIR.TAIR10. karyoploteR BSgenome
updated 2.9 years ago by 68k • written 2.9 years ago by • 0
2
votes
3
replies
1.5k
views
Request : Add Chinese Spring Wheat genome to BSgenome
BSgenome
updated 20 months ago by • 0 • written 3.3 years ago by ▴ 10
1
vote
1
reply
1.1k
views
Request: Add Marmoset (calJac4) genome to BSgenome
BSgenome
updated 3.4 years ago by 16k • written 3.4 years ago by • 0
1
vote
0
replies
1.2k
views
News: BSgenome package for T2T-CHM13v2.0 assembly and SNPlocs package for dbSNP155
BSgenome dbSNP T2T-CHM13v2.0 SNPlocs
3.4 years ago Hervé Pagès 16k
1
vote
1
reply
1.3k
views
Fail to install BSgenome and library
BSgenome Celegans
updated 3.4 years ago by 16k • written 3.4 years ago by • 0
1
vote
0
replies
1.2k
views
How about a getSeq() method for GRanges ?
GenomicRanges BSGenome
3.4 years ago Charles Plessy ▴ 180
2
votes
4
replies
2.0k
views
Subset a BSgenome object (keep standard chomosomes) for applying vmatchPattern or vmatchPDict
BSgenome seqinfo
3.5 years ago alain.corvisier • 0
2
votes
1
reply
1.2k
views
How to find the BSgenome object that provided the seqinfo of a GRanges object ?
BSgenome
updated 3.6 years ago by 16k • written 3.6 years ago by ▴ 180
1
vote
5
replies
1.8k
views
submitting a BSgenome package
BSgenome
4.8 years ago • updated 3.6 years ago deisianyufg • 0
1
vote
2
replies
1.4k
views
Building BSgenome package fails - .make_BSgenome_seqinfo error: sequence names found in .2bit file are not identical to 'seqnames'
BSGenome Forge
3.8 years ago geo.vogler ▴ 10
1
vote
2
replies
1.3k
views
How to make OrgPackage (BSgenome data) package available for R Bioconductor users
BSGenome
updated 4.3 years ago by 16k • written 4.3 years ago by • 0
2
votes
7
replies
2.2k
views
Can I use BSgenome for in-house assemblies?
BSgenome
updated 4.3 years ago by 16k • written 4.3 years ago by • 0
3
votes
5
replies
1.8k
views
unable to forge custom BSgenome after update
BSgenome
updated 4.4 years ago by 16k • written 4.4 years ago by ▴ 80
0
votes
0
replies
943
views
how to construct a SNPlocs-class by myself
BSgenome SNPlocs
4.4 years ago Guandong Shang ▴ 40
2
votes
4
replies
2.3k
views
BSGenome Forge for non-model organism
BSGenomeForge BSGenome
updated 4.4 years ago by 16k • written 4.4 years ago by • 0
0
votes
3
replies
2.8k
views
Can BSGenome forge from non-UCSC/NCBI assemblies?
BSgenome
updated 4.7 years ago by ▴ 10 • written 4.8 years ago by • 0
3
votes
2
replies
3.2k
views
Forging a BSGenome
BSgenome microtus forging
updated 4.7 years ago by 16k • written 4.7 years ago by ▴ 20
1
vote
4
replies
2.1k
views
forging a BSgenome data package - Seed file issue
seedfiles BSgenome
4.8 years ago n.mary • 0
2
votes
2
replies
2.1k
views
How does one modify a single value of a field in a seqinfo object?
GenomicRanges GenomeInfoDb BSgenome isCircular
updated 4.8 years ago by 16k • written 4.9 years ago by ▴ 80
0
votes
3
replies
1.9k
views
Error in Forge the target package (BSgenome)
software error BSgenome
5.0 years ago • updated 4.8 years ago jiazhou0116 • 0
1
vote
1
reply
1.4k
views
About generating a seed file (DCF format) for forging a BSgenome
software error BSgenome
updated 5.0 years ago by 16k • written 5.0 years ago by • 0
0
votes
0
replies
858
views
Error in loading forged BSgenome
BSgenome msgbsR
5.0 years ago jiazhou0116 • 0
0
votes
1
reply
1.8k
views
How can i get repetitive elements genomic ranges in human genome?
repetitive elements IRanges GenomicRanges BSgenome
updated 5.0 years ago by 68k • written 5.0 years ago by ▴ 50
0
votes
1
reply
1.3k
views
error when forging a BSgenome
BSgenome
updated 5.3 years ago by 4.2k • written 5.3 years ago by ▴ 10
0
votes
4
replies
2.6k
views
Error in seqlevelsStyle after creating a BSgenome package
bsgenome MutationalPatterns
5.4 years ago sibyl.bertrand • 0
0
votes
2
replies
1.3k
views
vmatchPattern error using a DNA string and BSgenome
Biostrings vmatchPattern BSgenome
5.4 years ago mb2subi • 0
2
votes
6
replies
1.6k
views
Can't find library BSgenome.Mmulatta.UCSC for latest genome (mmul10)
annotation mmul10 BSgenome
updated 5.7 years ago by 16k • written 5.7 years ago by ▴ 40
1
vote
0
replies
1.1k
views
News: New BSgenome data packages for bosTau9, rheMac10, danRer11, and galGal6
BSgenome News
5.7 years ago Hervé Pagès 16k
2
votes
1
reply
841
views
Does "exclude" argument break BSgenome::vmatchPattern?
BSgenome
updated 5.8 years ago by 68k • written 5.8 years ago by ▴ 160
0
votes
6
replies
2.9k
views
Error while attempting to forge BSgenome data package
bsgenome ggbio
updated 5.8 years ago by • 0 • written 10.9 years ago by • 0
3
votes
15
replies
2.9k
views
Error in creating BSGenome package
BSGenome
updated 5.9 years ago by 68k • written 5.9 years ago by • 0
0
votes
3
replies
1.8k
views
Defining BSgenome -> GRanges S4 coercer without package attaching
BSgenome methods GenomicRanges
6.0 years ago Aditya ▴ 160
2
votes
3
replies
1.8k
views
What is the use of a masked BSgenome?
BSgenome BSgenome.Mmusculus.UCSC.mm10::Mmusculus Biostrings
updated 6.0 years ago by 4.2k • written 6.0 years ago by ▴ 160
1
vote
2
replies
1.4k
views
Is it useful to define and export a setAs('BSgenome', 'GRanges')
BSgenome GenomicRanges
updated 6.0 years ago by ★ 11k • written 6.0 years ago by ▴ 160
0
votes
2
replies
1.4k
views
getBSgenome{Bsgenome}: avoid attaching BiocGenerics (and others)
BSgenome Bsgenome.Mmusculus.UCSC.mm10
6.1 years ago • updated 6.0 years ago Aditya ▴ 160
1
vote
6
replies
3.4k
views
How to subset a BSgenome
BSgenome BSgenome.Mmusculus.UCSC.mm10
updated 6.1 years ago by 4.2k • written 6.1 years ago by ▴ 160
0
votes
6
replies
1.6k
views
error when using matchProbePair with BSgenome.Hsapiens.UCSC.hg19
matchProbePair BSgenome Biostrings BSgenome.Hsapiens.UCSC.hg19
updated 6.3 years ago by 68k • written 6.3 years ago by • 0
0
votes
1
reply
1.2k
views
getSeqSrcpaths (forgeBSgenome) error files not found, but they are right there....
bsgenome forgebsgenome getSeqSrcpaths
6.4 years ago tguerreroa90 • 0
2
votes
1
reply
1.3k
views
Do TxDb objects contain info about non-transcriptionally active regions?
TxDb GRanges BSGenome variant annotation
updated 6.5 years ago by 68k • written 6.5 years ago by ▴ 40
0
votes
9
replies
2.2k
views
Unable to generate feature vector with custom genome in cleanUpdTSeq
cleanUpdTSeq BSgenome BSgenomeForge
updated 6.5 years ago by ★ 4.3k • written 6.5 years ago by • 0
348 results • Page 1 of 7
Recent ...
Replies
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200
I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Not sure I understand. You ask how to do something and then show how one would do so.
Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10
Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200
I have checked DEGs between Solvent Control (SC) of FP and LP and there are noticebale differences in terms of DEGs. ``` # Checking SC in …
Answer: A0A287BB68 not recognized as UNPROT key in org.Ss.eg.db using AnnotationDbi::sel by James W. MacDonald 68k
Apparently it's been over-ridden by a different UniProtKB ID ``` > select(org.Ss.eg.db, "MYH11", "UNIPROT", "SYMBOL") 'select()' retu…
Votes
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
Can NanoString data be analyzed using DESeq2?
Awards • All
Popular Question to Robert Castelo ★ 3.4k
Popular Question to Gordon Smyth 52k
Popular Question to littlefishes20 ▴ 10
Popular Question to Dario Strbenac ★ 1.6k
Popular Question to shepherl 4.2k
Locations • All
EMBL Heidelberg, 59 minutes ago
United States, 1 hour ago
Chile, 1 hour ago
India, 2 hours ago
Nigeria, 4 hours ago
Traffic: 669 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6