Showing : SNPlocs • reset
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495
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SNP locus package for mouse?
SNPlocs packFinder
updated 11 months ago by 68k • written 11 months ago by • 0
1
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3
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1.1k
views
Using injectSNPs with a custom set of SNPs
SNPlocs BSgenome
written 17 months ago by • 0
0
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1
reply
736
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Could not find XtraSNPlocs.Hsapiens.dbSNP155.GRCh37/GRCh38 packages
XtraSNPlocs SNPlocs
updated 2.3 years ago by ★ 4.8k • written 2.3 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
3.0 years ago Hervé Pagès 16k
0
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0
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871
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how to construct a SNPlocs-class by myself
BSgenome SNPlocs
4.0 years ago Guandong Shang ▴ 40
0
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1
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1.3k
views
3.7 behaviour change with snplocs snpsById?
software error snplocs gpos
updated 6.8 years ago by 16k • written 6.9 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
8.1 years ago Ramiro Magno ▴ 100
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1.9k
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injectSNPS only for common variants
snp snplocs
updated 8.4 years ago by ★ 3.4k • written 8.4 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 9.7 years ago by • 0 • written 13.1 years ago by 16k
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6
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2.7k
views
dbSNP build for R package SNPlocs.Hsapiens.dbSNP.20080617
SNP Cancer SNPlocs SNP Cancer SNPlocs
updated 9.7 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
10.4 years ago • updated 10.3 years ago garrisrg ▴ 10
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2
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2.0k
views
using snpid2grange() and/or rsidsToGRanges() for rsid lists with missing
SNPlocs
updated 10.5 years ago by 6.7k • written 10.5 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
10.9 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 11.2 years ago by ▴ 20 • written 11.2 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
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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 11.3 years ago by ▴ 280 • written 11.3 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
11.3 years ago Hervé Pagès 16k
0
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2.3k
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BioStrings for current R: RE: BSgenomeForge seed file - seqnames field
GO Cancer BSgenome OrganismDb SNPlocs TranscriptDb Biostrings BSgenome rtracklayer MEDIPS
11.3 years ago Hervé Pagès 16k
0
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1
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1.2k
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custom variant AnnotationDbi?
Annotation SNPlocs Annotation SNPlocs
updated 11.5 years ago by 6.7k • written 11.5 years ago by ▴ 380
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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 12.1 years ago by ★ 4.2k • written 12.1 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 12.2 years ago by 16k • written 12.2 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
12.2 years ago Christina Chaivorapol ▴ 40
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4
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2.4k
views
predictCoding() return empty Granges
Annotation Cancer Arabidopsis thaliana BSgenome SNPlocs TranscriptDb BSgenome Annotation
updated 12.5 years ago by 16k • written 12.5 years ago by ▴ 100
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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 12.5 years ago by 16k • written 12.5 years ago by ▴ 100
0
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4
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1.9k
views
GGtools: transScores function returning cis eQTL
SNP Annotation probe SNPlocs GGtools SNP Annotation probe SNPlocs GGtools
updated 12.5 years ago by 6.7k • written 12.5 years ago by ★ 13k
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1.4k
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dbSNP strand information
SNPlocs safe SNPlocs safe
13.1 years ago Alex Gutteridge ▴ 650
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3
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1.7k
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Strand information for dbSNP packages
SNPlocs safe SNPlocs safe
updated 13.1 years ago by ★ 6.8k • written 13.1 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 13.1 years ago by ★ 6.8k • written 13.1 years ago by ▴ 650
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3
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2.1k
views
RE : maping SNPs
SNP Annotation Cancer SNPlocs TranscriptDb GenomicFeatures GenomicRanges SNP Annotation
updated 13.2 years ago by 16k • written 13.2 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 13.4 years ago by 16k • written 13.4 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 13.4 years ago by ★ 11k • written 13.4 years ago by ★ 1.0k
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6
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1.7k
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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 13.6 years ago by 6.7k • written 13.6 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 13.7 years ago by ★ 4.2k • written 13.7 years ago by ▴ 400
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2
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1.4k
views
seqnames on dbSNP object error
SNPlocs SNPlocs
updated 14.0 years ago by 16k • written 14.0 years ago by ▴ 910
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2
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1.8k
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RE : RE : maping SNPs
SNP SNPlocs TranscriptDb IRanges GenomicFeatures SNP SNPlocs TranscriptDb IRanges
updated 14.3 years ago by ★ 6.8k • written 14.3 years ago by ▴ 450
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1.8k
views
RE : maping SNPs; first foundation challenge offered
SNP Annotation Cancer SNPlocs TranscriptDb biomaRt GenomicFeatures SNP Annotation Cancer
14.3 years ago Vincent J. Carey, Jr. 6.7k
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2
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1.6k
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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
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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
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3.1k
views
How to find SNP names
SNP Homo sapiens SNPlocs SNP Homo sapiens SNPlocs
updated 15.8 years ago by 16k • written 15.8 years ago by ▴ 90
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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
16.1 years ago Paul Shannon ★ 1.1k
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0
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1.6k
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About the bioconductor package SNPlocs.Hsapiens.dbSNP.20071016.
SNP Cancer SNPlocs SNP Cancer SNPlocs
16.2 years ago Hervé Pagès 16k
0
votes
4
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2.9k
views
how to modify a Biostrings object
SNPlocs SNPlocs
updated 16.2 years ago by 16k • written 16.2 years ago by ★ 1.1k
43 results • Page 1 of 1
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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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