Showing : snp • reset
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How to getting synonymous SNPs from BiomaRt before timing out?
biomaRt SNP
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
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0
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870
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Human to mouse SNP conversion
liftOver SNP GWASTools
2.1 years ago bonheur • 0
0
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4
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1.2k
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Which software can prune 5 Million SNPs?
LinkageDisequilibrium SNP gwas GWASdata ldblock
2.1 years ago Weiqiong • 0
0
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1
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1.3k
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How to remove INDELS/SNPs from a bed file
SNP
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
0
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0
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716
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Database for exploring annotations of the coding genome at variants, such as candidate regulatory SNPs at disease-associated loci.
SNP ExomeSeqData snapcount SNAData SNPRelate
2.5 years ago m610110001 • 0
0
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0
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967
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ACMG Annotations for Variants in R
ACMG SNP
2.8 years ago hamza_karakurt ▴ 60
0
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2
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3.8k
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How to get the rsID of 4 million SNPA
ensembldb SNP SNPData genomes
written 3.2 years ago by • 0
0
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1
reply
1.6k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 3.3 years ago by ▴ 890 • written 3.4 years ago by • 0
0
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1
reply
1.1k
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Get CHR & POS for a list of SNP rs ids (>1M)
POS CHR SNP rs
updated 3.5 years ago by 68k • written 3.5 years ago by • 0
0
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0
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1.3k
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Reading Affymetrix Axiom files
affy SNP axiom
3.9 years ago f.calboli • 0
0
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0
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969
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Extract flanking sequences SNP without reference genome
SNPData snpStats SNP flankingsequences
4.1 years ago Amber • 0
5
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4
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14k
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Getting rs ids using chr coordinates | Biomart
SNP rs id Biomart Chromosome coordinates
updated 21 months ago by 68k • written 4.7 years ago by • 0
6
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11
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2.5k
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"associated_gene" attribute from biomaRt returns too few values - SNP(rsID dataset)
r biomart SNP annotation HUGO
updated 4.7 years ago by ★ 6.6k • written 4.7 years ago by • 0
2
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2
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3.4k
views
How to convert 1000 genomes VCF files to the format of traditional SNP array format?
SNP 1000genome
updated 4.8 years ago by 25k • written 4.8 years ago by ▴ 20
1
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2
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1.7k
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TCGA MAF (Mutations) data
TCGA MAF GDC snp mutations
updated 6.0 years ago by 21k • written 6.0 years ago by ▴ 160
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0
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1.1k
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genetic and linkage maps construction
genetic map linkage maps SNP assembly GBS
6.2 years ago mictadlo ▴ 10
0
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0
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975
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R: estimating error rate of replicated samples
R SNP genotyping genetic diversity
6.3 years ago meriam.nef • 0
0
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0
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1.8k
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How to extract SNPs from multiple alignment fasta file?
snp multiple sequence alignment fasta Tutorial
updated 6.5 years ago by 25k • written 6.5 years ago by • 0
0
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11
replies
4.2k
views
SNP6 data to VCF
SNP oligo ASSIGN SNP oligo ASSIGN
updated 6.6 years ago by • 0 • written 13.2 years ago by 21k
0
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1
reply
1.7k
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Finding/Understanding Affy 6.0 Annotation File
affy affymetrix microarray SNP
6.7 years ago CantExitVIM ▴ 10
3
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5
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2.1k
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Understanding PureCN and its germline SNPs
PureCN germline SNP
updated 6.9 years ago by • 0 • written 7.1 years ago by ▴ 10
0
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1
reply
2.1k
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VCF file non-SNP germline mutations
PureCN VCF SNP
updated 7.0 years ago by ▴ 130 • written 7.0 years ago by ▴ 10
0
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3
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2.4k
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dbSNP - getting details of Pubmed ID for a SNP
SNP SNP
updated 7.1 years ago by • 0 • written 15.3 years ago by ▴ 180
0
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1
reply
1.6k
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How to draw venn diagram with four CSV files
R SNP venn diagram
updated 7.2 years ago by 68k • written 7.2 years ago by • 0
0
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0
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1.0k
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Wtccc sanger dataset
SNP
7.2 years ago hadeel.alzoubi • 0
0
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1
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1.5k
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How to map a SNP to all genes within 50kb (upstream or downstream) of the SNP?
annotation R snp
updated 7.8 years ago by 68k • written 7.8 years ago by ▴ 10
0
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0
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1.1k
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Error when changing the database for minfi dropLociWithSnps
minfi methylationepic illuminahumanmethylationepicanno.ilmn10b.hg19 SNP
7.8 years ago Ellen O • 0
2
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1
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1.5k
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GenomicAlignments/access correct bp positions near indels
genomicranges genomicalignments snp
updated 8.0 years ago by 16k • written 8.0 years ago by ▴ 90
3
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4
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1.9k
views
How often are SNPlocs.Hsapiens.dbSNP-* packages released? and why that time scale?
SNPlocs SNP dbsnp
8.2 years ago Ramiro Magno ▴ 100
1
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Calculate the number of SNP differences between sequences in multiple alignment
pairwisealignment SNP dnasequence
8.2 years ago lordbleys • 0
3
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3
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2.3k
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Retrieve SNP flanking sequences in biomaRt
biomart snp upstream_flank downstream_flank
updated 8.4 years ago by ★ 6.6k • written 8.4 years ago by ▴ 20
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2
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injectSNPS only for common variants
snp snplocs
updated 8.5 years ago by ★ 3.4k • written 8.5 years ago by • 0
0
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3
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Gramene now available via biomaRt
SNP Transcription biomaRt Vega SNP Transcription biomaRt Vega
updated 8.5 years ago by • 0 • written 18.2 years ago by ▴ 580
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0
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1.3k
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vizualization of mutations
genomes SNP
8.6 years ago Bogdan ▴ 670
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0
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1.3k
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Illumina Genotyping in parallel raise an error
crlmm snp illumina
8.8 years ago nadne ▴ 10
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2.3k
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Job: Bioinformatics Scientist @ Berlin Institute for Medical Systems Biology
rnaseq snp chipseq Job
8.9 years ago altuna akalin ▴ 20
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1
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1.5k
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Error with FunciSNP
snp R gwastools
9.0 years ago musomilan • 0
2
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3
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2.7k
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ggbio circular plot
ggbio SNP granges
updated 9.4 years ago by ★ 11k • written 9.4 years ago by • 0
5
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9
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4.7k
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Looking for annotation file for Affymetrix SNP 6.0
copynumber snp affymetrix
9.4 years ago KB ▴ 50
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1.3k
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Distance measure used by snpgdsPCA in SNPRelate
snp clustering
9.5 years ago mattcott • 0
1
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2
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2.6k
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DNAcopy: Using log-ratios and B-allele frequencies
sequencing snp
updated 9.6 years ago by ▴ 20 • written 9.6 years ago by • 0
0
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0
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1.3k
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News: gwascat package updated: new features in devel branch
GWAS genetic epidemiology SNP News
9.7 years ago Vincent J. Carey, Jr. 6.7k
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2
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4.2k
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Bioconductor 2.12 is released
BiocViews aCGH SNP Transcription Sequencing Microarray Coverage Alignment Annotation GO
updated 9.8 years ago by • 0 • written 12.1 years ago by ★ 8.2k
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6
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2.7k
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dbSNP build for R package SNPlocs.Hsapiens.dbSNP.20080617
SNP Cancer SNPlocs SNP Cancer SNPlocs
updated 9.8 years ago by • 0 • written 15.9 years ago by 16k
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1
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1.5k
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trouble with predictCoding( function
snp variantannotation predict coding
9.9 years ago vakul.mohanty ▴ 20
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2
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3.6k
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Pipeline for analyzing CNV (SNP array) level 3 from TCGA
SNP CNV TCGA
10.0 years ago NS ▴ 60
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2
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5.4k
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biomaRt: SNP no access to grch37.ensembl.org
SNP biomart archive grch37
10.1 years ago mrprao • 0
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1.6k
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DNAcopy default settings and SNP6.0 arrays
SNP DNAcopy SNP6.0 CNV
10.3 years ago giovanni.dario • 0
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6
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2.7k
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Good way to get location of in-del SNPs in UCSC coordinates?
snplocs snp
10.4 years ago garrisrg ▴ 10
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2
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1.9k
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biomaRt error message
biomaRt snp
updated 10.4 years ago by ▴ 800 • written 10.5 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: GSEA preranked analysis downstream of DEseq2 by Ajay • 0
`logFC * -log10(pval)` seems to be the pi-score proposed in this [paper][1] [1]: https://pmc.ncbi.nlm.nih.gov/articles/PMC3957066/
Comment: error in ChAMP loading file by janwilseo • 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis by donnycrimson • 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender by donnycrimson • 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Votes
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
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