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
2.8 years ago m610110001 • 0
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2
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1.5k
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How to project a new vector onto PCA space using snpgdsPCA( )?
SNPRelate
updated 3.5 years ago by ▴ 890 • written 3.5 years ago by • 0
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1
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1.7k
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SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 3.6 years ago by ▴ 890 • written 3.8 years ago by • 0
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1.3k
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SNPRelate handling of missing genotypes
SNPRelate
3.6 years ago serpalma.v ▴ 60
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1.1k
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#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate gdsfmt SeqSQC
3.9 years ago Bhargavi • 0
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1
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1.4k
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error when running snpgdsLDpruning: The GDS node "genotype/data" does not exist.
SNPRelate
updated 4.7 years ago by • 0 • written 4.7 years ago by • 0
3
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1
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1.5k
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How to add colors to the PCA made using SNPRelate
snprelate
updated 4.9 years ago by 68k • written 4.9 years ago by • 0
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1
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1.1k
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What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 6.2 years ago by ▴ 30 • written 6.2 years ago by • 0
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1
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1.2k
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Different order of samples in output of snpgdsSlidingWindow to calculate Fst and aggregation method
SNPRelate
updated 6.3 years ago by ▴ 30 • written 6.3 years ago by ▴ 60
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1
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2.1k
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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 6.4 years ago by ▴ 890 • written 6.4 years ago by • 0
1
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1
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1.3k
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PCA axis description SNPRelate
SNPRelate PCA
updated 6.4 years ago by ▴ 890 • written 6.4 years ago by ▴ 60
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1
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4.6k
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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 6.9 years ago by ▴ 30 • written 6.9 years ago by • 0
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1
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1.2k
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Using previously calculated PCs in GENESIS
genesis snprelate
6.9 years ago Stephanie M. Gogarten ▴ 890
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1
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1.8k
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Write gds in parallel
gds SNPRelate BiocParallel
updated 7.3 years ago by ▴ 30 • written 7.3 years ago by ▴ 40
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2
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2.1k
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Error converting vcf to gds
snprelate vcf gds
updated 7.4 years ago by ▴ 30 • written 7.4 years ago by • 0
1
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2
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2.2k
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Cannot read plink files correctly
snprelate Tutorial
updated 8.3 years ago by ▴ 30 • written 8.3 years ago by • 0
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1
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1.9k
views
SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 9.2 years ago by ▴ 30 • written 9.2 years ago by • 0
3
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2
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2.2k
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Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
snprelate GWASTools
updated 9.3 years ago by ▴ 30 • written 9.3 years ago by ▴ 40
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9
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7.2k
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unable to update mgcv package
mgcv snprelate
updated 9.7 years ago by 25k • written 9.7 years ago by • 0
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4
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3.0k
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NA values in snpgdsDiss dissimilarity matrix
snprelate
updated 9.8 years ago by ▴ 30 • written 9.8 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
9.8 years ago clive.darwell • 0
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2.2k
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GWASTools
Organism GWASTools Organism GWASTools SNPRelate
12.5 years ago Stephanie M. Gogarten ▴ 890
22 results • Page 1 of 1
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Answer: ROAST compare results with complex design by James W. MacDonald 68k
You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200
I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Not sure I understand. You ask how to do something and then show how one would do so.
Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10
Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…
Votes
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
Can NanoString data be analyzed using DESeq2?
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