Showing : snprelate • reset
0
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9
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6.2k
views
unable to update mgcv package
mgcv snprelate
updated 8.3 years ago by 25k • written 8.3 years ago by • 0
0
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1
reply
3.6k
views
SNPrelate, snpgdsFst is excluding all snps on non-autosomes, how can I get it to stop doing that?
snprelate fst
updated 5.5 years ago by ▴ 30 • written 5.5 years ago by • 0
0
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4
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2.3k
views
NA values in snpgdsDiss dissimilarity matrix
snprelate
updated 8.4 years ago by ▴ 30 • written 8.4 years ago by ▴ 10
0
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0
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1.9k
views
GWASTools
Organism GWASTools Organism GWASTools SNPRelate
11.1 years ago Stephanie M. Gogarten ▴ 870
3
votes
2
replies
1.7k
views
Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
snprelate GWASTools
updated 7.9 years ago by ▴ 30 • written 7.9 years ago by ▴ 40
1
vote
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
0
votes
2
replies
1.5k
views
Error converting vcf to gds
snprelate vcf gds
updated 6.1 years ago by ▴ 30 • written 6.1 years ago by • 0
1
vote
1
reply
1.5k
views
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
0
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1
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1.5k
views
SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 7.8 years ago by ▴ 30 • written 7.8 years ago by • 0
0
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1
reply
1.3k
views
Write gds in parallel
gds SNPRelate BiocParallel
updated 6.0 years ago by ▴ 30 • written 6.0 years ago by ▴ 40
0
votes
1
reply
1.1k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 2.2 years ago by ▴ 870 • written 2.4 years ago by • 0
3
votes
1
reply
1.0k
views
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
vote
1
reply
966
views
PCA axis description SNPRelate
SNPRelate PCA
updated 5.1 years ago by ▴ 870 • written 5.1 years ago by ▴ 60
0
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0
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924
views
RADseq chromosomes unknown
snprelate RADseq Stacks
8.4 years ago clive.darwell • 0
0
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2
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915
views
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
0
votes
1
reply
909
views
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
0
votes
1
reply
895
views
Using previously calculated PCs in GENESIS
genesis snprelate
5.6 years ago Stephanie M. Gogarten ▴ 870
0
votes
1
reply
851
views
Different order of samples in output of snpgdsSlidingWindow to calculate Fst and aggregation method
SNPRelate
updated 4.9 years ago by ▴ 30 • written 5.0 years ago by ▴ 60
1
vote
1
reply
801
views
What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 4.8 years ago by ▴ 30 • written 4.8 years ago by • 0
0
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0
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787
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SNPRelate handling of missing genotypes
SNPRelate
2.3 years ago serpalma.v ▴ 60
0
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0
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678
views
#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate gdsfmt SeqSQC
2.5 years ago Bhargavi • 0
0
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0
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465
views
Database for exploring annotations of the coding genome at variants, such as candidate regulatory SNPs at disease-associated loci.
SNP ExomeSeqData snapcount SNAData SNPRelate
17 months ago m610110001 • 0
22 results • Page 1 of 1
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Answer: Why p value inconsistent when using different number of pathway score? by ATpoint ★ 4.0k
Same answer as here: https://support.bioconductor.org/p/9157606/ Adding or removing data (samples, genes, pathways, observations...) chang…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Thanks Robert!
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
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Comment: significant difference of p-values with dream() after updating VariancePartition
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