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Showing :
GENESIS
•
reset
0
votes
1
reply
225
views
GENESIS: error in crossprod
GENESIS
3 months ago
Stephanie M. Gogarten
▴ 870
0
votes
2
replies
430
views
GENESIS: Can not use GdsGenotypeReader to read a gds file
GENESIS
GWASTools
GDSfile
updated 5 months ago by
Stephanie M. Gogarten
▴ 870 • written 5 months ago by
Mindy wang
• 0
0
votes
2
replies
416
views
SKAT-O method using GENESIS, question about range iterator using SeqVarWindowIterator
GENESIS
SeqVarTools
updated 6 months ago by
Stephanie M. Gogarten
▴ 870 • written 6 months ago by
pjuge
• 0
1
vote
1
reply
467
views
HOW to FIX - PCAir excludes all my SNPs because there is no chromosome information
GENESIS
autosome-only=FALSE?
PCAir
updated 6 months ago by
James W. MacDonald
65k • written 6 months ago by
gabry.scata
• 0
0
votes
0
replies
292
views
How many ancestries to send in admixMap() when doing a two-way analysis?
GENESIS
admixMap
7 months ago
mailtoshivam13
• 0
2
votes
5
replies
787
views
assocTestSingle output with GxE
GENESIS
updated 10 months ago by
Stephanie M. Gogarten
▴ 870 • written 11 months ago by
SuperDad
• 0
0
votes
1
reply
452
views
Reference categories for factors
assocTestSingle
GENESIS
written 15 months ago by
SuperD
• 0
0
votes
2
replies
720
views
kinToMatrix creates an empty matrix (except for diagonal 0.5 values)
kingToMatrix
GENESIS
Plants
19 months ago
Monica
• 0
1
vote
2
replies
4.1k
views
Why are my p-values deflated (GWAS)?
gwas
genesis
p-value
q-q-plot
updated 3.3 years ago by
Anna
• 0 • written 4.5 years ago by
solanum
• 0
0
votes
1
reply
853
views
Approximations to Est and Est.SE in GENESIS
GENESIS
3.4 years ago
Stephanie M. Gogarten
▴ 870
0
votes
0
replies
695
views
X chromosome analyses for males in GENESIS
GENESIS
3.5 years ago
Stephanie M. Gogarten
▴ 870
0
votes
3
replies
1.4k
views
Alternate allele for GENESIS?
genesis
effect allele
association analysis
updated 3.7 years ago by
Stephanie M. Gogarten
▴ 870 • written 3.7 years ago by
ucbtapc
• 0
0
votes
1
reply
797
views
using GENESIS R package with non-human species
genesis
gwastools
3.8 years ago
Stephanie M. Gogarten
▴ 870
0
votes
2
replies
916
views
Association testing model in GENESIS
genesis
updated 3.9 years ago by
Stephanie M. Gogarten
▴ 870 • written 3.9 years ago by
o.giannakopoulou
• 0
0
votes
1
reply
1.1k
views
GENESIS multiple gds files
genesis
gds
SeqVarData
updated 3.9 years ago by
Stephanie M. Gogarten
▴ 870 • written 3.9 years ago by
JT
• 0
0
votes
8
replies
1.5k
views
Question: GENESIS: assocTestSingle() is not giving any output; guessing that it is arising from GenotypeBlockIterator()
Genesis
4.3 years ago
alipka
▴ 10
2
votes
1
reply
677
views
Does GENESIS match scan IDs for genotype and phenotype data?
GENESIS
updated 4.3 years ago by
Stephanie M. Gogarten
▴ 870 • written 4.3 years ago by
lassana.a.samarakoon
▴ 10
0
votes
0
replies
870
views
Normalisation of Data before loading in TMixClust
rna-seq
tmixclust
k-means clustering
gene expression
genesis
4.4 years ago
astridite
• 0
2
votes
1
reply
814
views
Why did the Wald test disappear from GENESIS?
genesis
4.5 years ago
Stephanie M. Gogarten
▴ 870
1
vote
3
replies
1.3k
views
Error in fitNullMM from GENESIS package on highly-related samples
GENESIS
4.6 years ago
Corey.Cox
• 0
1
vote
1
reply
1.0k
views
Calculating the z score from wald test association results in GENESIS
GENESIS
zscore
wald
updated 4.6 years ago by
Stephanie M. Gogarten
▴ 870 • written 4.6 years ago by
lassana.a.samarakoon
▴ 10
3
votes
6
replies
1.4k
views
Interpreting the output of score test using GENESIS
genesis
output
score
updated 4.6 years ago by
Stephanie M. Gogarten
▴ 870 • written 4.6 years ago by
lassana.a.samarakoon
▴ 10
2
votes
4
replies
1.1k
views
Sporadic missingness with admixmmap
genesis
admixmap
updated 4.7 years ago by
Stephanie M. Gogarten
▴ 870 • written 4.7 years ago by
GENOMIC_region
• 0
0
votes
3
replies
1.7k
views
Can't install Genesis
Genesis
Installation
updated 4.8 years ago by
Mike Smith
★ 6.5k • written 4.8 years ago by
winstondunnmd
▴ 10
0
votes
3
replies
1.2k
views
GENESIS: ascertainment in GWAS
genesis
fitnullmodel
gwas
ascertainment
updated 4.8 years ago by
mconomos
▴ 70 • written 4.8 years ago by
ferranpauls10
• 0
6
votes
11
replies
2.8k
views
Genesis: doubts with admixMAPMM
genesis
admixmap
updated 5.1 years ago by
Stephanie M. Gogarten
▴ 870 • written 5.1 years ago by
GENOMIC_region
• 0
0
votes
1
reply
919
views
betas for binary outcome
genesis
5.1 years ago
Stephanie M. Gogarten
▴ 870
0
votes
13
replies
2.3k
views
GENESIS pcrelate() write gds file doesn't work
genesis
pcrelate
gds
updated 5.2 years ago by
Stephanie M. Gogarten
▴ 870 • written 5.2 years ago by
o.giannakopoulou
• 0
4
votes
2
replies
1.8k
views
Imputed dosages in GENESIS
genesis
gwastools
seqarray
5.6 years ago • updated 5.3 years ago
Stephanie M. Gogarten
▴ 870
0
votes
1
reply
987
views
Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS
GWAS
resampling
resample
statistics
5.3 years ago
naglemi
▴ 10
1
vote
1
reply
936
views
Difference between AssocTestMM (GENESIS) and EMMAX? Why results are different?
GENESIS
GWAS
AssocTestMM
updated 5.5 years ago by
mconomos
▴ 70 • written 5.5 years ago by
naglemi
▴ 10
1
vote
1
reply
929
views
GENESIS pcrelate() to load gds file and continue where the function broke
genesis
pcrrelate
gds
updated 5.5 years ago by
Stephanie M. Gogarten
▴ 870 • written 5.5 years ago by
roll
• 0
0
votes
1
reply
913
views
Using previously calculated PCs in GENESIS
genesis
snprelate
5.6 years ago
Stephanie M. Gogarten
▴ 870
0
votes
1
reply
993
views
Unable to build GDS with more than 255 scaffolds?
GENESIS
GWAS
GDS
updated 5.7 years ago by
zhengx
▴ 30 • written 5.7 years ago by
naglemi
▴ 10
0
votes
1
reply
792
views
selecting SNPs and samples in GENESIS
genesis
5.8 years ago
Stephanie M. Gogarten
▴ 870
0
votes
3
replies
1.2k
views
GENESIS: assocTestMM error for lack of sex chromosome info (not relevant for this species)
GENESIS
assoctestmm
GWAS
updated 5.8 years ago by
mconomos
▴ 70 • written 5.8 years ago by
naglemi
▴ 10
3
votes
4
replies
1.5k
views
Why is assocTestMM running with only a fraction of SNPs in genotype data?
LMM
GWAS
GENESIS
assocTestMM
updated 5.8 years ago by
mconomos
▴ 70 • written 5.8 years ago by
naglemi
▴ 10
2
votes
8
replies
1.7k
views
GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
genesis
pcair
6.0 years ago
GENOMIC_region
• 0
0
votes
7
replies
1.8k
views
GENESIS: king2mat: subscript out of bounds
genesis
6.0 years ago
Stephanie M. Gogarten
▴ 870
39 results • Page
1 of 1
Recent ...
Replies
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs
by
shaunpeterson
• 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network()
by
damian.szk
▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Comment: STRINGdb : error with string_db$plot_network()
by
ninidea
• 0
> Does the vignette produce the same error? No. Anyway, I finally solved the problem. I don't know why, but I removed: protocol='http' fr…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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