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snprelate
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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
3.3 years ago
m610110001
• 0
0
votes
2
replies
1.6k
views
How to project a new vector onto PCA space using snpgdsPCA( )?
SNPRelate
updated 3.9 years ago by
Stephanie M. Gogarten
▴ 890 • written 3.9 years ago by
MatthaeusCaesar
• 0
0
votes
1
reply
2.0k
views
SNP annotation
SNPRelate
SNP
GWASTools
Annotation
GWASdata
updated 4.0 years ago by
Stephanie M. Gogarten
▴ 890 • written 4.2 years ago by
Adrián
• 0
0
votes
0
replies
1.5k
views
SNPRelate handling of missing genotypes
SNPRelate
4.0 years ago
serpalma.v
▴ 60
0
votes
0
replies
1.2k
views
#SeqSQC error: Problem while converting vcf format to gds format
SNPRelate
gdsfmt
SeqSQC
4.3 years ago
Bhargavi
• 0
0
votes
1
reply
1.5k
views
error when running snpgdsLDpruning: The GDS node "genotype/data" does not exist.
SNPRelate
updated 5.1 years ago by
xiuwen.zheng
• 0 • written 5.1 years ago by
alyssahz
• 0
3
votes
1
reply
1.6k
views
How to add colors to the PCA made using SNPRelate
snprelate
updated 5.4 years ago by
James W. MacDonald
68k • written 5.4 years ago by
zen
• 0
1
vote
1
reply
1.3k
views
What does SNPRelate::snpgdsDiss calculate?
SNPRelate
updated 6.6 years ago by
zhengx
▴ 30 • written 6.6 years ago by
grp2009
• 0
0
votes
1
reply
1.3k
views
Different order of samples in output of snpgdsSlidingWindow to calculate Fst and aggregation method
SNPRelate
updated 6.7 years ago by
zhengx
▴ 30 • written 6.7 years ago by
serpalma.v
▴ 60
1
vote
1
reply
2.2k
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 6.8 years ago by
Stephanie M. Gogarten
▴ 890 • written 6.8 years ago by
cav3gh
• 0
1
vote
1
reply
1.5k
views
PCA axis description SNPRelate
SNPRelate
PCA
updated 6.9 years ago by
Stephanie M. Gogarten
▴ 890 • written 6.9 years ago by
serpalma.v
▴ 60
0
votes
1
reply
4.8k
views
SNPrelate, snpgdsFst is excluding all snps on non-autosomes, how can I get it to stop doing that?
snprelate
fst
updated 7.3 years ago by
zhengx
▴ 30 • written 7.3 years ago by
cav3gh
• 0
0
votes
1
reply
1.3k
views
Using previously calculated PCs in GENESIS
genesis
snprelate
7.4 years ago
Stephanie M. Gogarten
▴ 890
0
votes
1
reply
1.9k
views
Write gds in parallel
gds
SNPRelate
BiocParallel
updated 7.8 years ago by
zhengx
▴ 30 • written 7.8 years ago by
Vinicius Henrique da Silva
▴ 40
0
votes
2
replies
2.2k
views
Error converting vcf to gds
snprelate
vcf
gds
updated 7.8 years ago by
zhengx
▴ 30 • written 7.9 years ago by
annat22
• 0
1
vote
2
replies
2.3k
views
Cannot read plink files correctly
snprelate
Tutorial
updated 8.7 years ago by
zhengx
▴ 30 • written 8.7 years ago by
AR3513
• 0
0
votes
1
reply
2.0k
views
SNPRelate Dendrogram Point Colors and Shapes
SNPRelate
R
updated 9.6 years ago by
zhengx
▴ 30 • written 9.6 years ago by
rfriedman22
• 0
3
votes
2
replies
2.4k
views
Minimum allele frequency (MAF) from a Genomic Data Structure (GDS) file
snprelate
GWASTools
updated 9.7 years ago by
Adrienne Stilp
▴ 30 • written 9.7 years ago by
Vinicius Henrique da Silva
▴ 40
0
votes
9
replies
7.6k
views
unable to update mgcv package
mgcv
snprelate
updated 10.1 years ago by
Martin Morgan
25k • written 10.1 years ago by
mail2vignesh1985
• 0
0
votes
4
replies
3.1k
views
NA values in snpgdsDiss dissimilarity matrix
snprelate
updated 10.2 years ago by
zhengx
▴ 30 • written 10.2 years ago by
blackgore
▴ 10
0
votes
0
replies
1.3k
views
RADseq chromosomes unknown
snprelate
RADseq
Stacks
10.2 years ago
clive.darwell
• 0
0
votes
0
replies
2.3k
views
GWASTools
Organism
GWASTools
Organism
GWASTools
SNPRelate
12.9 years ago
Stephanie M. Gogarten
▴ 890
22 results • Page
1 of 1
Recent ...
Replies
Comment: msmsTests, inconsistent sign between lFC.Av and LogFC
by
Ben
• 0
Continued here due to posting difficulties: Extract from the results table: ``` Inhibitor Vehicle lFC.Av LogFC ... F1 0.0 27…
Answer: DESeq2 for 16S rRNA Analysis
by
James W. MacDonald
68k
The Wald test is only meant for comparison of two groups at a time, so it depends on what you mean by 'analyze across multiple groups at a …
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list'
by
varying.mastodon.isyn
• 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Comment: Confirm that OpenStats will not be archived (pryr dependency)
by
Marina
• 0
Thank you!
Comment: AnnotationForge makeOrgPackage rsqlite_send_query error
by
ansley.r.burtch
• 0
Hi! I am sure you are well into your career now and haven't worked on this for a while, but I wanted to let you know this is still helping …
Votes
A: DESeq2 - VST eliminates zero values
Comment: Normalise to a housekeeping gene in DESEq2
Comment: limpa analysis advice
C: AnnotationForge makeOrgPackage rsqlite_send_query error
Answer: Limpa Pipeline Order
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