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
2.4 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 3.1 years ago by ▴ 890 • written 3.1 years ago by • 0
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1.6k
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SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 3.2 years ago by ▴ 890 • written 3.4 years ago by • 0
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SNPRelate handling of missing genotypes
SNPRelate
3.2 years ago serpalma.v ▴ 60
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963
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#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate gdsfmt SeqSQC
3.5 years ago Bhargavi • 0
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1.3k
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error when running snpgdsLDpruning: The GDS node "genotype/data" does not exist.
SNPRelate
updated 4.3 years ago by • 0 • written 4.3 years ago by • 0
3
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1
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1.4k
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How to add colors to the PCA made using SNPRelate
snprelate
updated 4.5 years ago by 68k • written 4.5 years ago by • 0
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1
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1.0k
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What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 5.8 years ago by ▴ 30 • written 5.8 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 5.9 years ago by ▴ 30 • written 5.9 years ago by ▴ 60
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1
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2.0k
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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 6.0 years ago by ▴ 890 • written 6.0 years ago by • 0
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1
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1.2k
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PCA axis description SNPRelate
SNPRelate PCA
updated 6.0 years ago by ▴ 890 • written 6.0 years ago by ▴ 60
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1
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4.4k
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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 6.5 years ago by ▴ 30 • written 6.5 years ago by • 0
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1.1k
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Using previously calculated PCs in GENESIS
genesis snprelate
6.5 years ago Stephanie M. Gogarten ▴ 890
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1.6k
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Write gds in parallel
gds SNPRelate BiocParallel
updated 6.9 years ago by ▴ 30 • written 6.9 years ago by ▴ 40
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2
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1.9k
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Error converting vcf to gds
snprelate vcf gds
updated 7.0 years ago by ▴ 30 • written 7.0 years ago by • 0
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2
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2.0k
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Cannot read plink files correctly
snprelate Tutorial
updated 7.9 years ago by ▴ 30 • written 7.9 years ago by • 0
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1
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1.8k
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SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 8.8 years ago by ▴ 30 • written 8.8 years ago by • 0
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2
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2.1k
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Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
snprelate GWASTools
updated 8.9 years ago by ▴ 30 • written 8.9 years ago by ▴ 40
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9
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7.0k
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unable to update mgcv package
mgcv snprelate
updated 9.3 years ago by 25k • written 9.3 years ago by • 0
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4
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2.8k
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NA values in snpgdsDiss dissimilarity matrix
snprelate
updated 9.4 years ago by ▴ 30 • written 9.4 years ago by ▴ 10
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1.1k
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RADseq chromosomes unknown
snprelate RADseq Stacks
9.4 years ago clive.darwell • 0
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2.1k
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GWASTools
Organism GWASTools Organism GWASTools SNPRelate
12.1 years ago Stephanie M. Gogarten ▴ 890
22 results • Page 1 of 1
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Answer: Model performance for spline modelling of RNA-seq timecourses in edgeR by Gordon Smyth 52k
I don't understand your question, because there is no difference between limma or glmFit or glmQLFit in terms of spline modeling or the tes…
Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0
Perhaps edgeR's upperquartile normalization handles this better, the MA looks a lot more centered at 0 ![enter image description here][1]…
Answer: DESeq2 - am I extracting results incorrectly? by James W. MacDonald 68k
If I assume that Followup gets converted to T3 and Treatment to LowSug somewhere along the line (and therefore GroupTreatment.Followup is G…
Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0
I noticed the dual populations as well, when using csaw this is controlled for. Regarding the DE profile, given this disease condition we e…
Answer: Origin of the labels for the SingleCellMultiModal dataset by ATpoint ★ 4.8k
If you check the underlying code a bit you find that there is a file with data sources: ```r modes_file <- system.file("extdata", "metadat…
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Limma outputs different results for same sample?
Answer: Improving performance of edgeR and limma while adjusting for multiple confounder
Comment: DESeq - help with pair wise comparisons
Answer: Is random access by row index possible for an indexed VCF file?
Answer: Is random access by row index possible for an indexed VCF file?
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