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
2.1 years ago m610110001 • 0
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2
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1.2k
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How to project a new vector onto PCA space using snpgdsPCA( )?
SNPRelate
updated 2.7 years ago by ▴ 870 • written 2.7 years ago by • 0
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1
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1.4k
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SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 2.8 years ago by ▴ 870 • written 3.0 years ago by • 0
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1.1k
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SNPRelate handling of missing genotypes
SNPRelate
2.8 years ago serpalma.v ▴ 60
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860
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#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate gdsfmt SeqSQC
3.1 years ago Bhargavi • 0
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1
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1.1k
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error when running snpgdsLDpruning: The GDS node "genotype/data" does not exist.
SNPRelate
updated 3.9 years ago by • 0 • written 4.0 years ago by • 0
3
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1
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1.2k
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How to add colors to the PCA made using SNPRelate
snprelate
updated 4.2 years ago by 67k • written 4.2 years ago by • 0
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1
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963
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What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 5.4 years ago by ▴ 30 • written 5.4 years ago by • 0
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1
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1.0k
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Different order of samples in output of snpgdsSlidingWindow to calculate Fst and aggregation method
SNPRelate
updated 5.5 years ago by ▴ 30 • written 5.6 years ago by ▴ 60
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1
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1.8k
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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 5.6 years ago by ▴ 870 • written 5.6 years ago by • 0
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1
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1.1k
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PCA axis description SNPRelate
SNPRelate PCA
updated 5.7 years ago by ▴ 870 • written 5.7 years ago by ▴ 60
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1
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4.1k
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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 6.1 years ago by ▴ 30 • written 6.1 years ago by • 0
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1
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1.0k
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Using previously calculated PCs in GENESIS
genesis snprelate
6.2 years ago Stephanie M. Gogarten ▴ 870
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1
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1.5k
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Write gds in parallel
gds SNPRelate BiocParallel
updated 6.6 years ago by ▴ 30 • written 6.6 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 6.7 years ago by ▴ 30 • written 6.7 years ago by • 0
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2
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1.9k
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Cannot read plink files correctly
snprelate Tutorial
updated 7.5 years ago by ▴ 30 • written 7.5 years ago by • 0
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1
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1.7k
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SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 8.4 years ago by ▴ 30 • written 8.4 years ago by • 0
3
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2
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1.9k
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Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
snprelate GWASTools
updated 8.5 years ago by ▴ 30 • written 8.5 years ago by ▴ 40
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9
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6.7k
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unable to update mgcv package
mgcv snprelate
updated 8.9 years ago by 25k • written 8.9 years ago by • 0
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4
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2.6k
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NA values in snpgdsDiss dissimilarity matrix
snprelate
updated 9.0 years ago by ▴ 30 • written 9.0 years ago by ▴ 10
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0
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1.0k
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RADseq chromosomes unknown
snprelate RADseq Stacks
9.0 years ago clive.darwell • 0
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0
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2.0k
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GWASTools
Organism GWASTools Organism GWASTools SNPRelate
11.7 years ago Stephanie M. Gogarten ▴ 870
22 results • Page 1 of 1
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Replies
Answer: Deseq2 res Function by Michael Love 43k
> Does this mean the young and KO groups were numerators and denominators in the analysis, respectively? Read over the vignette and work…
Answer: ANOVA like approach of edgeR by Gordon Smyth 51k
You need to clarify whether interactions are present for the two factors in your study. In the two factors do not interact, then the code y…
Answer: Create Illmina bead summary data by Gordon Smyth 51k
GenomeStudio produces IDAT files that you can read using the `read.idat` function in limma. That is the recommended way to read GenomeStudi…
Comment: Help with RSEM counts: do I transpose matrix? by NB • 0
OK thank you.
Comment: Help with RSEM counts: do I transpose matrix? by James W. MacDonald 67k
You can ask here, but please read the `DESeq2` vignette first, which should answer most questions.
Votes
Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
Answer: ANOVA like approach of edgeR
Comment: ANOVA like approach of edgeR
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