Showing : SNPlocs • reset
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358
views
SNP locus package for mouse?
SNPlocs packFinder
updated 6 months ago by 67k • written 6 months ago by • 0
1
vote
3
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908
views
Using injectSNPs with a custom set of SNPs
SNPlocs BSgenome
written 12 months ago by • 0
0
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1
reply
673
views
Could not find XtraSNPlocs.Hsapiens.dbSNP155.GRCh37/GRCh38 packages
XtraSNPlocs SNPlocs
updated 22 months ago by ★ 4.5k • written 22 months ago by ▴ 20
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News: BSgenome package for T2T-CHM13v2.0 assembly and SNPlocs package for dbSNP155
BSgenome dbSNP T2T-CHM13v2.0 SNPlocs
2.5 years ago Hervé Pagès 16k
0
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0
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794
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how to construct a SNPlocs-class by myself
BSgenome SNPlocs
3.6 years ago Guandong Shang ▴ 40
0
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1
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1.2k
views
3.7 behaviour change with snplocs snpsById?
software error snplocs gpos
updated 6.4 years ago by 16k • written 6.5 years ago by • 0
3
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4
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1.7k
views
How often are SNPlocs.Hsapiens.dbSNP-* packages released? and why that time scale?
SNPlocs SNP dbsnp
7.7 years ago Ramiro Magno ▴ 100
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2
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1.7k
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injectSNPS only for common variants
snp snplocs
updated 8.0 years ago by ★ 3.4k • written 8.0 years ago by • 0
0
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1
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1.2k
views
SNPlocs package for dbSNP 135
Cancer SNPlocs Cancer SNPlocs
updated 9.2 years ago by • 0 • written 12.7 years ago by 16k
0
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6
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2.5k
views
dbSNP build for R package SNPlocs.Hsapiens.dbSNP.20080617
SNP Cancer SNPlocs SNP Cancer SNPlocs
updated 9.3 years ago by • 0 • written 15.4 years ago by 16k
1
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6
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2.6k
views
Good way to get location of in-del SNPs in UCSC coordinates?
snplocs snp
9.9 years ago garrisrg ▴ 10
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2
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1.8k
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using snpid2grange() and/or rsidsToGRanges() for rsid lists with missing
SNPlocs
updated 10.1 years ago by 6.7k • written 10.1 years ago by ▴ 20
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0
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1.6k
views
minfi release 1.8
SNP Annotation GO probe SNPlocs PROcess minfi bumphunter ChAMP SNP Annotation GO probe
10.5 years ago swarmqq@gmail.com ▴ 10
0
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3
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2.1k
views
minfi release 1.8
SNP Annotation GO probe SNPlocs PROcess minfi bumphunter ChAMP SNP Annotation GO probe
updated 10.7 years ago by ▴ 20 • written 10.8 years ago by ★ 4.2k
0
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2
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1.7k
views
VCF as custom variant annotation database
Annotation SNPlocs Annotation SNPlocs
updated 10.8 years ago by ★ 6.8k • written 10.8 years ago by ▴ 380
0
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1
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1.6k
views
Question about MEDIPS extend parameter : RE: Success: RE: Seed file error: RE: BioStrings for current R: RE: BSgenomeForge seed file - seqnames field
Annotation GO Cancer BSgenome OrganismDb SNPlocs TranscriptDb Biostrings BSgenome MEDIPS
updated 10.9 years ago by ▴ 280 • written 10.9 years ago by 16k
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0
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2.1k
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Seed file error: RE: BioStrings for current R: RE: BSgenomeForge seed file - seqnames field
Annotation GO Cancer BSgenome OrganismDb SNPlocs TranscriptDb Biostrings BSgenome GO
10.9 years ago Hervé Pagès 16k
0
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0
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2.2k
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BioStrings for current R: RE: BSgenomeForge seed file - seqnames field
GO Cancer BSgenome OrganismDb SNPlocs TranscriptDb Biostrings BSgenome rtracklayer MEDIPS
10.9 years ago Hervé Pagès 16k
0
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1
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1.1k
views
custom variant AnnotationDbi?
Annotation SNPlocs Annotation SNPlocs
updated 11.1 years ago by 6.7k • written 11.1 years ago by ▴ 380
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2
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4.0k
views
From location to get the SNP rs ID
SNP Cancer SNPlocs ASSIGN SNP Cancer SNPlocs ASSIGN
updated 11.4 years ago by 16k • written 11.4 years ago by ▴ 970
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4
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1.9k
views
IlluminaHumanMethylation450kprobe for nearest TSS calculation question
Annotation BSgenome SNPlocs BSgenome Annotation BSgenome SNPlocs BSgenome
updated 11.7 years ago by ★ 4.2k • written 11.7 years ago by ★ 13k
0
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3
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2.0k
views
Problem locating SNP by rsID for SNPlocs.Hsapiens.dbSNP.20120608 package Bioconductor x
SNP SNPlocs SNP SNPlocs
updated 11.8 years ago by 16k • written 11.8 years ago by ▴ 40
0
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0
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1.1k
views
Problem locating SNP by rsID for SNPlocs.Hsapiens.dbSNP.20120608 package
SNP SNPlocs SNP SNPlocs
11.8 years ago Christina Chaivorapol ▴ 40
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4
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2.2k
views
predictCoding() return empty Granges
Annotation Cancer Arabidopsis thaliana BSgenome SNPlocs TranscriptDb BSgenome Annotation
updated 12.1 years ago by 16k • written 12.1 years ago by ▴ 100
0
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3
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1.5k
views
predictCoding() return empty Granges
Annotation Cancer Arabidopsis thaliana BSgenome SNPlocs TranscriptDb BSgenome Annotation
updated 12.1 years ago by 16k • written 12.1 years ago by ▴ 100
0
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4
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1.8k
views
GGtools: transScores function returning cis eQTL
SNP Annotation probe SNPlocs GGtools SNP Annotation probe SNPlocs GGtools
updated 12.1 years ago by 6.7k • written 12.1 years ago by ★ 13k
0
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0
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1.3k
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dbSNP strand information
SNPlocs safe SNPlocs safe
12.7 years ago Alex Gutteridge ▴ 650
0
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3
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1.6k
views
Strand information for dbSNP packages
SNPlocs safe SNPlocs safe
updated 12.7 years ago by ★ 6.8k • written 12.7 years ago by ▴ 650
0
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4
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1.6k
views
Finding coding SNPs with predictCoding
SNP VariantAnnotation BSgenome SNPlocs BSgenome VariantAnnotation SNP VariantAnnotation
updated 12.7 years ago by ★ 6.8k • written 12.7 years ago by ▴ 650
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3
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2.0k
views
RE : maping SNPs
SNP Annotation Cancer SNPlocs TranscriptDb GenomicFeatures GenomicRanges SNP Annotation
updated 12.7 years ago by 16k • written 12.7 years ago by ▴ 450
0
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1
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1.2k
views
custom SNPlocs / BSgenome package
SNP Annotation Organism Homo sapiens BSgenome SNPlocs BSgenome SNP Annotation Organism
updated 12.9 years ago by 16k • written 12.9 years ago by ▴ 100
0
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1
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1.6k
views
Does liftOver work for SNPs mapping to different chr between different builds
SNP GO Cancer SNPlocs rtracklayer SNP GO Cancer SNPlocs rtracklayer
updated 13.0 years ago by ★ 11k • written 13.0 years ago by ★ 1.0k
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6
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1.6k
views
SNPcounts error in SNPlocs.Hsapiens.dbSNP.20110815_0.99.3 (i.e., my attempt to update SNPlocs to dbSNP build 134)
Regression SNPlocs Biostrings Regression SNPlocs Biostrings
updated 13.1 years ago by 6.7k • written 13.1 years ago by ★ 4.2k
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7
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2.0k
views
Probe ID to Sequence
SNPlocs GenomicRanges SNPlocs GenomicRanges
updated 13.3 years ago by ★ 4.2k • written 13.3 years ago by ▴ 400
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2
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1.3k
views
seqnames on dbSNP object error
SNPlocs SNPlocs
updated 13.6 years ago by 16k • written 13.6 years ago by ▴ 910
0
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2
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1.7k
views
RE : RE : maping SNPs
SNP SNPlocs TranscriptDb IRanges GenomicFeatures SNP SNPlocs TranscriptDb IRanges
updated 13.8 years ago by ★ 6.8k • written 13.8 years ago by ▴ 450
0
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0
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1.8k
views
RE : maping SNPs; first foundation challenge offered
SNP Annotation Cancer SNPlocs TranscriptDb biomaRt GenomicFeatures SNP Annotation Cancer
13.9 years ago Vincent J. Carey, Jr. 6.7k
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2
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1.5k
views
New SNPlocs data package for Human (dbSNP BUILD 131)
Cancer BSgenome SNPlocs BSgenome Cancer BSgenome SNPlocs BSgenome
14.5 years ago Hervé Pagès 16k
0
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3
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1.1k
views
Fwd: cannot install SNPlocs.Hsapiens.dbSNP.20090506
SNPlocs SNPlocs
updated 14.8 years ago by ▴ 70 • written 14.8 years ago by 21k
0
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1
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2.9k
views
How to find SNP names
SNP Homo sapiens SNPlocs SNP Homo sapiens SNPlocs
updated 15.4 years ago by 16k • written 15.4 years ago by ▴ 90
0
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3
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1.1k
views
other human genomes, other SNP sets?
Sequencing BSgenome SNPlocs BSgenome Sequencing BSgenome SNPlocs BSgenome
15.7 years ago Paul Shannon ★ 1.1k
0
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0
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1.5k
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About the bioconductor package SNPlocs.Hsapiens.dbSNP.20071016.
SNP Cancer SNPlocs SNP Cancer SNPlocs
15.7 years ago Hervé Pagès 16k
0
votes
4
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2.7k
views
how to modify a Biostrings object
SNPlocs SNPlocs
updated 15.7 years ago by 16k • written 15.7 years ago by ★ 1.1k
43 results • Page 1 of 1
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Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim by Gordon Smyth 51k
`nec` computes one set of negative control parameters (mu, sigma, alpha) for each sample.
Comment: DESeq Input from Salmon + tximport/tximeta by LuciaNhu • 0
Thank you to the author for the quick reply. If I use `gene_counts_length_scaled.tsv` as a metric that has already normalized for library s…
Answer: DESeq Input from Salmon + tximport/tximeta by Michael Love 42k
Given nf-core's pipeline here, you can use rounded counts from `gene_counts_length_scaled.tsv`.
Comment: Question about using LRT test for time course experiments with DESeq2 by James W. MacDonald 67k
You don't want to add a logFC on top like that, as it invalidates the p-value. Maybe I wasn't clear before. The LRT gives you all the gene…
Comment: Question about using LRT test for time course experiments with DESeq2 by Denise • 0
Hi James, Thank you very much for your very detailed explanation! I guess my question is simpler than that, I just want to union, across…
Votes
Answer: DESeq Input from Salmon + tximport/tximeta
Answer: featureCounts segmentation fault with large chromosomes
Answer: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
Comment: Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chu
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