Showing : snplocs • reset
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SNP locus package for mouse?
SNPlocs packFinder
updated 10 months ago by 68k • written 10 months ago by • 0
1
vote
3
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1.1k
views
Using injectSNPs with a custom set of SNPs
SNPlocs BSgenome
written 16 months ago by • 0
0
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1
reply
723
views
Could not find XtraSNPlocs.Hsapiens.dbSNP155.GRCh37/GRCh38 packages
XtraSNPlocs SNPlocs
updated 2.2 years ago by ★ 4.7k • written 2.2 years ago by ▴ 20
1
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News: BSgenome package for T2T-CHM13v2.0 assembly and SNPlocs package for dbSNP155
BSgenome dbSNP T2T-CHM13v2.0 SNPlocs
2.9 years ago Hervé Pagès 16k
0
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0
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858
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how to construct a SNPlocs-class by myself
BSgenome SNPlocs
3.9 years ago Guandong Shang ▴ 40
0
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1
reply
1.3k
views
3.7 behaviour change with snplocs snpsById?
software error snplocs gpos
updated 6.8 years ago by 16k • written 6.8 years ago by • 0
3
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4
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1.8k
views
How often are SNPlocs.Hsapiens.dbSNP-* packages released? and why that time scale?
SNPlocs SNP dbsnp
8.0 years ago Ramiro Magno ▴ 100
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2
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1.8k
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injectSNPS only for common variants
snp snplocs
updated 8.3 years ago by ★ 3.4k • written 8.3 years ago by • 0
0
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1
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1.3k
views
SNPlocs package for dbSNP 135
Cancer SNPlocs Cancer SNPlocs
updated 9.6 years ago by • 0 • written 13.1 years ago by 16k
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6
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2.6k
views
dbSNP build for R package SNPlocs.Hsapiens.dbSNP.20080617
SNP Cancer SNPlocs SNP Cancer SNPlocs
updated 9.6 years ago by • 0 • written 15.8 years ago by 16k
1
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6
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2.7k
views
Good way to get location of in-del SNPs in UCSC coordinates?
snplocs snp
10.3 years ago garrisrg ▴ 10
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2
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1.9k
views
using snpid2grange() and/or rsidsToGRanges() for rsid lists with missing
SNPlocs
updated 10.4 years ago by 6.7k • written 10.4 years ago by ▴ 20
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0
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1.7k
views
minfi release 1.8
SNP Annotation GO probe SNPlocs PROcess minfi bumphunter ChAMP SNP Annotation GO probe
10.8 years ago swarmqq@gmail.com ▴ 10
0
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3
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2.2k
views
minfi release 1.8
SNP Annotation GO probe SNPlocs PROcess minfi bumphunter ChAMP SNP Annotation GO probe
updated 11.1 years ago by ▴ 20 • written 11.1 years ago by ★ 4.2k
0
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2
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1.8k
views
VCF as custom variant annotation database
Annotation SNPlocs Annotation SNPlocs
updated 11.2 years ago by ★ 6.8k • written 11.2 years ago by ▴ 380
0
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1
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1.7k
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 11.2 years ago by ▴ 280 • written 11.2 years ago by 16k
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2.2k
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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
11.2 years ago Hervé Pagès 16k
0
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0
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2.3k
views
BioStrings for current R: RE: BSgenomeForge seed file - seqnames field
GO Cancer BSgenome OrganismDb SNPlocs TranscriptDb Biostrings BSgenome rtracklayer MEDIPS
11.2 years ago Hervé Pagès 16k
0
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1
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1.2k
views
custom variant AnnotationDbi?
Annotation SNPlocs Annotation SNPlocs
updated 11.4 years ago by 6.7k • written 11.4 years ago by ▴ 380
0
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2
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4.2k
views
From location to get the SNP rs ID
SNP Cancer SNPlocs ASSIGN SNP Cancer SNPlocs ASSIGN
updated 11.8 years ago by 16k • written 11.8 years ago by ▴ 970
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4
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2.0k
views
IlluminaHumanMethylation450kprobe for nearest TSS calculation question
Annotation BSgenome SNPlocs BSgenome Annotation BSgenome SNPlocs BSgenome
updated 12.0 years ago by ★ 4.2k • written 12.0 years ago by ★ 13k
0
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3
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2.1k
views
Problem locating SNP by rsID for SNPlocs.Hsapiens.dbSNP.20120608 package Bioconductor x
SNP SNPlocs SNP SNPlocs
updated 12.1 years ago by 16k • written 12.1 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
12.1 years ago Christina Chaivorapol ▴ 40
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4
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2.3k
views
predictCoding() return empty Granges
Annotation Cancer Arabidopsis thaliana BSgenome SNPlocs TranscriptDb BSgenome Annotation
updated 12.4 years ago by 16k • written 12.4 years ago by ▴ 100
0
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3
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1.6k
views
predictCoding() return empty Granges
Annotation Cancer Arabidopsis thaliana BSgenome SNPlocs TranscriptDb BSgenome Annotation
updated 12.4 years ago by 16k • written 12.4 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 12.4 years ago by 6.7k • written 12.4 years ago by ★ 13k
0
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0
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1.4k
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dbSNP strand information
SNPlocs safe SNPlocs safe
13.0 years ago Alex Gutteridge ▴ 650
0
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3
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1.7k
views
Strand information for dbSNP packages
SNPlocs safe SNPlocs safe
updated 13.0 years ago by ★ 6.8k • written 13.0 years ago by ▴ 650
0
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4
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1.7k
views
Finding coding SNPs with predictCoding
SNP VariantAnnotation BSgenome SNPlocs BSgenome VariantAnnotation SNP VariantAnnotation
updated 13.0 years ago by ★ 6.8k • written 13.0 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 13.1 years ago by 16k • written 13.1 years ago by ▴ 450
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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 13.3 years ago by 16k • written 13.3 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 13.3 years ago by ★ 11k • written 13.3 years ago by ★ 1.0k
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6
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1.7k
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 13.5 years ago by 6.7k • written 13.5 years ago by ★ 4.2k
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7
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2.1k
views
Probe ID to Sequence
SNPlocs GenomicRanges SNPlocs GenomicRanges
updated 13.6 years ago by ★ 4.2k • written 13.6 years ago by ▴ 400
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2
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1.4k
views
seqnames on dbSNP object error
SNPlocs SNPlocs
updated 13.9 years ago by 16k • written 13.9 years ago by ▴ 910
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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 14.2 years ago by ★ 6.8k • written 14.2 years ago by ▴ 450
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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
14.2 years ago Vincent J. Carey, Jr. 6.7k
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2
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1.6k
views
New SNPlocs data package for Human (dbSNP BUILD 131)
Cancer BSgenome SNPlocs BSgenome Cancer BSgenome SNPlocs BSgenome
14.9 years ago Hervé Pagès 16k
0
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3
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1.2k
views
Fwd: cannot install SNPlocs.Hsapiens.dbSNP.20090506
SNPlocs SNPlocs
updated 15.2 years ago by ▴ 70 • written 15.2 years ago by 21k
0
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1
reply
3.0k
views
How to find SNP names
SNP Homo sapiens SNPlocs SNP Homo sapiens SNPlocs
updated 15.7 years ago by 16k • written 15.7 years ago by ▴ 90
0
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3
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1.2k
views
other human genomes, other SNP sets?
Sequencing BSgenome SNPlocs BSgenome Sequencing BSgenome SNPlocs BSgenome
16.0 years ago Paul Shannon ★ 1.1k
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0
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1.6k
views
About the bioconductor package SNPlocs.Hsapiens.dbSNP.20071016.
SNP Cancer SNPlocs SNP Cancer SNPlocs
16.1 years ago Hervé Pagès 16k
0
votes
4
replies
2.9k
views
how to modify a Biostrings object
SNPlocs SNPlocs
updated 16.1 years ago by 16k • written 16.1 years ago by ★ 1.1k
43 results • Page 1 of 1
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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga by Jane • 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k
No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
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A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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