Showing : SNPRelate • reset
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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
2.2 years ago m610110001 • 0
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2
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1.3k
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How to project a new vector onto PCA space using snpgdsPCA( )?
SNPRelate
updated 2.8 years ago by ▴ 890 • written 2.8 years ago by • 0
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1.5k
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SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 3.0 years ago by ▴ 890 • written 3.1 years ago by • 0
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1.1k
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SNPRelate handling of missing genotypes
SNPRelate
3.0 years ago serpalma.v ▴ 60
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889
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#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate gdsfmt SeqSQC
3.3 years ago Bhargavi • 0
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1
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1.2k
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error when running snpgdsLDpruning: The GDS node "genotype/data" does not exist.
SNPRelate
updated 4.1 years ago by • 0 • written 4.1 years ago by • 0
3
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1
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1.3k
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How to add colors to the PCA made using SNPRelate
snprelate
updated 4.3 years ago by 67k • written 4.3 years ago by • 0
1
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1
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985
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What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 5.6 years ago by ▴ 30 • written 5.6 years ago by • 0
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1
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1.1k
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Different order of samples in output of snpgdsSlidingWindow to calculate Fst and aggregation method
SNPRelate
updated 5.7 years ago by ▴ 30 • written 5.7 years ago by ▴ 60
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1
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1.9k
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VCF file does not include snp.id, can I still run SNPRelate for Relatedness Analysis? Data is output from STACKS for mangroves
SNPRelate VCF
updated 5.8 years ago by ▴ 890 • written 5.8 years ago by • 0
1
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1
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1.2k
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PCA axis description SNPRelate
SNPRelate PCA
updated 5.8 years ago by ▴ 890 • written 5.8 years ago by ▴ 60
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1
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4.2k
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SNPrelate, snpgdsFst is excluding all snps on non-autosomes, how can I get it to stop doing that?
snprelate fst
updated 6.2 years ago by ▴ 30 • written 6.2 years ago by • 0
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1
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1.1k
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Using previously calculated PCs in GENESIS
genesis snprelate
6.3 years ago Stephanie M. Gogarten ▴ 890
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1
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1.6k
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Write gds in parallel
gds SNPRelate BiocParallel
updated 6.7 years ago by ▴ 30 • written 6.7 years ago by ▴ 40
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2
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1.8k
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Error converting vcf to gds
snprelate vcf gds
updated 6.8 years ago by ▴ 30 • written 6.8 years ago by • 0
1
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2
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1.9k
views
Cannot read plink files correctly
snprelate Tutorial
updated 7.6 years ago by ▴ 30 • written 7.6 years ago by • 0
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1
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1.7k
views
SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 8.6 years ago by ▴ 30 • written 8.6 years ago by • 0
3
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2
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2.0k
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Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
snprelate GWASTools
updated 8.6 years ago by ▴ 30 • written 8.6 years ago by ▴ 40
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9
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6.8k
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unable to update mgcv package
mgcv snprelate
updated 9.1 years ago by 25k • written 9.1 years ago by • 0
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4
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2.7k
views
NA values in snpgdsDiss dissimilarity matrix
snprelate
updated 9.1 years ago by ▴ 30 • written 9.2 years ago by ▴ 10
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0
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1.1k
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RADseq chromosomes unknown
snprelate RADseq Stacks
9.2 years ago clive.darwell • 0
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0
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2.1k
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GWASTools
Organism GWASTools Organism GWASTools SNPRelate
11.8 years ago Stephanie M. Gogarten ▴ 890
22 results • Page 1 of 1
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Answer: promoters_txdb <- promoters(txdb, upstream = 2000) is not 2000 by James W. MacDonald 67k
If you use `promoters` and do not provide an argument for something that has a default, you will get the default argument. Your last call t…
Comment: org.Hs.eg.db issue by k.panov • 0
installed R on another PC, works perfectly. ergo, problem outside of R probably..... :-(
Comment: MBDseq analysis using qsea package by Lukas ▴ 20
Hi, I checked in with Matthias and here is his response: You need to indicate "samples": "The indices of the samples for which individu…
Comment: DESeq2 analysis with transcript counts by sindhuri • 0
Thank you for the response. Currently I am using the R studio for analysis and Im running DESeq2 for analysis of the **transcript counts.ts…
Comment: iam not able to do retrive data using GEOquery R package by James W. MacDonald 67k
Another alternative is to use the `GEOmetadb` package ([vignette here)][1], which will allow you to make queries to identify GEO datasets t…
Votes
Answer: Issue carrying out DiffBind Analysis at a predefined peak set
Answer: Differential variability modelling with vst() expression
Answer: Differential variability modelling with vst() expression
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
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