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
2.9 years ago m610110001 • 0
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2
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How to project a new vector onto PCA space using snpgdsPCA( )?
SNPRelate
updated 3.6 years ago by ▴ 890 • written 3.6 years ago by • 0
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1.8k
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SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 3.7 years ago by ▴ 890 • written 3.9 years ago by • 0
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SNPRelate handling of missing genotypes
SNPRelate
3.7 years ago serpalma.v ▴ 60
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#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate gdsfmt SeqSQC
4.0 years ago Bhargavi • 0
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1.4k
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error when running snpgdsLDpruning: The GDS node "genotype/data" does not exist.
SNPRelate
updated 4.8 years ago by • 0 • written 4.8 years ago by • 0
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1.5k
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How to add colors to the PCA made using SNPRelate
snprelate
updated 5.0 years ago by 68k • written 5.0 years ago by • 0
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1.1k
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What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 6.3 years ago by ▴ 30 • written 6.3 years ago by • 0
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1.3k
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Different order of samples in output of snpgdsSlidingWindow to calculate Fst and aggregation method
SNPRelate
updated 6.4 years ago by ▴ 30 • written 6.4 years ago by ▴ 60
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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 6.5 years ago by ▴ 890 • written 6.5 years ago by • 0
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1.3k
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PCA axis description SNPRelate
SNPRelate PCA
updated 6.5 years ago by ▴ 890 • written 6.5 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 7.0 years ago by ▴ 30 • written 7.0 years ago by • 0
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1.2k
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Using previously calculated PCs in GENESIS
genesis snprelate
7.0 years ago Stephanie M. Gogarten ▴ 890
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1.8k
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Write gds in parallel
gds SNPRelate BiocParallel
updated 7.4 years ago by ▴ 30 • written 7.4 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 7.5 years ago by ▴ 30 • written 7.5 years ago by • 0
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2
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2.2k
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Cannot read plink files correctly
snprelate Tutorial
updated 8.4 years ago by ▴ 30 • written 8.4 years ago by • 0
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1
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1.9k
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SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 9.3 years ago by ▴ 30 • written 9.3 years ago by • 0
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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 9.4 years ago by ▴ 30 • written 9.4 years ago by ▴ 40
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9
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7.3k
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unable to update mgcv package
mgcv snprelate
updated 9.8 years ago by 25k • written 9.8 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 9.9 years ago by ▴ 30 • written 9.9 years ago by ▴ 10
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RADseq chromosomes unknown
snprelate RADseq Stacks
9.9 years ago clive.darwell • 0
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2.2k
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GWASTools
Organism GWASTools Organism GWASTools SNPRelate
12.6 years ago Stephanie M. Gogarten ▴ 890
22 results • Page 1 of 1
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Comment: JunctionSeq producing strangely large effect sizes for certain exon counting bin by 97shandie • 0
That's a tricky issue! I've definitely seen similar behavior in differential exon usage analysis. It sounds like the normalization method J…
Comment: Heat Map by 97shandie • 0
Hi Dania, it looks like you're on the right track building your heatmap! It's great you've already filtered your data based on adjusted p-v…
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Results with PON give more variants by ejafgdf4.ge.r.m • 0
It s common to expect Mutect2 with a PON to be a strict subset of Mutect2 without it but seeing unique variants in Mutect2withPON isn t unu…
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Comment: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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