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
18 months ago m610110001 • 0
0
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2
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948
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How to project a new vector onto PCA space using snpgdsPCA( )?
SNPRelate
updated 2.1 years ago by ▴ 870 • written 2.1 years ago by • 0
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1
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1.1k
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SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 2.3 years ago by ▴ 870 • written 2.4 years ago by • 0
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807
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SNPRelate handling of missing genotypes
SNPRelate
2.3 years ago serpalma.v ▴ 60
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0
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694
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#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate gdsfmt SeqSQC
2.6 years ago Bhargavi • 0
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1
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926
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error when running snpgdsLDpruning: The GDS node "genotype/data" does not exist.
SNPRelate
updated 3.4 years ago by • 0 • written 3.4 years ago by • 0
3
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1
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1.0k
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How to add colors to the PCA made using SNPRelate
snprelate
updated 3.6 years ago by 65k • written 3.6 years ago by • 0
1
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1
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810
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What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 4.9 years ago by ▴ 30 • written 4.9 years ago by • 0
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1
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867
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Different order of samples in output of snpgdsSlidingWindow to calculate Fst and aggregation method
SNPRelate
updated 5.0 years ago by ▴ 30 • written 5.0 years ago by ▴ 60
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1
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1.6k
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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 5.1 years ago by ▴ 870 • written 5.1 years ago by • 0
1
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1
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987
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PCA axis description SNPRelate
SNPRelate PCA
updated 5.1 years ago by ▴ 870 • written 5.1 years ago by ▴ 60
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1
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3.7k
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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 5.6 years ago by ▴ 30 • written 5.6 years ago by • 0
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1
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909
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Using previously calculated PCs in GENESIS
genesis snprelate
5.6 years ago Stephanie M. Gogarten ▴ 870
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1
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1.3k
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Write gds in parallel
gds SNPRelate BiocParallel
updated 6.0 years ago by ▴ 30 • written 6.0 years ago by ▴ 40
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2
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1.6k
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Error converting vcf to gds
snprelate vcf gds
updated 6.1 years ago by ▴ 30 • written 6.1 years ago by • 0
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2
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1.6k
views
Cannot read plink files correctly
snprelate Tutorial
updated 6.9 years ago by ▴ 30 • written 6.9 years ago by • 0
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1
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1.5k
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SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 7.9 years ago by ▴ 30 • written 7.9 years ago by • 0
3
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2
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1.8k
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Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
snprelate GWASTools
updated 8.0 years ago by ▴ 30 • written 8.0 years ago by ▴ 40
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9
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6.2k
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unable to update mgcv package
mgcv snprelate
updated 8.4 years ago by 25k • written 8.4 years ago by • 0
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4
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2.4k
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NA values in snpgdsDiss dissimilarity matrix
snprelate
updated 8.4 years ago by ▴ 30 • written 8.5 years ago by ▴ 10
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933
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RADseq chromosomes unknown
snprelate RADseq Stacks
8.5 years ago clive.darwell • 0
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1.9k
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GWASTools
Organism GWASTools Organism GWASTools SNPRelate
11.1 years ago Stephanie M. Gogarten ▴ 870
22 results • Page 1 of 1
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Answer: Method to find pathways different between 2 groups by Gordon Smyth 50k
> When I search camera limma on pubmed, I found 2 papers I am unclear what point you are trying to make. limma's camera method has been fo…
Comment: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 for all platforms without any issues. It has not had any period of …
Comment: package goseq seems to be not available on the latest version of R by Patrycja ▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 41k
Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…
Comment: DNAString: Standard checksum function? by Henrik Bengtsson ★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
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