Showing : GWASTools • reset
4
votes
2
replies
1.8k
views
Imputed dosages in GENESIS
genesis gwastools seqarray
5.5 years ago • updated 5.2 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
2
votes
1
reply
1.7k
views
Meaning of NA for LRR and BAF values estimated with GWASTools
gwastools lrr baf NA
updated 8.4 years ago by ▴ 870 • written 8.4 years ago by ▴ 40
2
votes
1
reply
1.1k
views
Error in importing signals with createAffyIntensityFile (GWASTools)
gwastools software error
updated 8.6 years ago by ▴ 870 • written 8.6 years ago by ▴ 40
2
votes
4
replies
835
views
Question about GWASTools gdsSubset
GWASTools gdsSubset
written 14 months ago by • 0
2
votes
3
replies
1.6k
views
Importing affymetrix genotype calls with GWASTools
gwastools genotype affymetrix microarrays
updated 8.6 years ago by ▴ 870 • written 8.6 years ago by ▴ 40
2
votes
1
reply
1.8k
views
PLINK features available in GWASTools?
gwastools
9.0 years ago Stephanie M. Gogarten ▴ 870
1
vote
5
replies
1.8k
views
"set genotype" function for gds?
gwastools gds
7.2 years ago Lna • 0
1
vote
14
replies
3.7k
views
GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and workflow
GWASTools qualitycontrol HumanOmni5-4BeadChip GenomeStudio illumina
updated 8.0 years ago by ▴ 870 • written 8.0 years ago by • 0
1
vote
1
reply
801
views
Missing normalized x, normalized y, baf and logrrratio values
gwastools
updated 6.1 years ago by ▴ 870 • written 6.1 years ago by • 0
1
vote
4
replies
1.4k
views
Errors when trying to install 'gwscat' on ubuntu with R 4.0.3
GWASTools gwascat
updated 3.4 years ago by ★ 6.5k • written 3.4 years ago by ▴ 10
0
votes
0
replies
1.2k
views
Fwd: GWASTools
cdf convert GWASTools cdf convert GWASTools
10.3 years ago Stephanie M. Gogarten ▴ 870
0
votes
0
replies
1.0k
views
small GWASTools patch to allow to use already built gds objects in Genotype Readers
GWASTools GWASTools
10.1 years ago Karl Forner ▴ 70
0
votes
1
reply
2.4k
views
help with analysis of genotyping data from Illumina HumanOmni5-4v1_B chip
SNP VariantAnnotation Annotation probe VariantAnnotation GWASTools SNP VariantAnnotation
updated 9.9 years ago by ▴ 870 • written 9.9 years ago by ▴ 160
0
votes
1
reply
1.5k
views
GWASTools instalation problem
GWASTools GWASTools
updated 9.8 years ago by ★ 8.2k • written 9.8 years ago by ▴ 10
0
votes
0
replies
996
views
GWASTools: Sandwich SE
GWASTools GWASTools
9.8 years ago Adrienne Stilp ▴ 30
0
votes
2
replies
1.2k
views
GWASTools: assocTestRegression, forcing the analysis to use reference allele
GWASTools GWASTools
updated 9.7 years ago by ▴ 870 • written 9.7 years ago by ★ 13k
0
votes
2
replies
1.5k
views
Errors when attempting to run association tests in GWASTools
gwastools
9.5 years ago mrynerson • 0
0
votes
5
replies
1.6k
views
GWASTools assocTestCPH on cluster vs. computer
gwastools
updated 9.3 years ago by ▴ 870 • written 9.4 years ago by • 0
0
votes
2
replies
1.8k
views
Permutations of GWAS for GWASTools
gwastools
updated 8.6 years ago by ▴ 870 • written 8.6 years ago by • 0
0
votes
1
reply
1.1k
views
Joint test for interactions in GWASTools
gwastools
updated 8.6 years ago by ▴ 870 • written 8.6 years ago by • 0
0
votes
1
reply
1.1k
views
Using custom expected R to estimate LRR with GWASTools
gwastools
updated 8.3 years ago by ▴ 870 • written 8.3 years ago by ▴ 40
0
votes
1
reply
1.3k
views
Error with FunciSNP
snp R gwastools
8.0 years ago musomilan • 0
0
votes
6
replies
2.2k
views
Error using readVcf
gwastools variantannotation
updated 6.9 years ago by ▴ 870 • written 6.9 years ago by • 0
0
votes
2
replies
1.8k
views
Creating Intensity GDS file for the R package GWAStools
gwastools idat gds format
updated 6.8 years ago by ▴ 870 • written 6.8 years ago by • 0
0
votes
2
replies
1.5k
views
Question on 'gdsSubset' function
GWASTools
6.5 years ago yasuhito.nannya • 0
0
votes
4
replies
1.9k
views
how to save subsetted GDS file
gwastools
written 6.0 years ago by ▴ 30
0
votes
1
reply
895
views
GWASTools vcfWrite function
gwastools
6.0 years ago Stephanie M. Gogarten ▴ 870
0
votes
1
reply
783
views
using GENESIS R package with non-human species
genesis gwastools
3.8 years ago Stephanie M. Gogarten ▴ 870
0
votes
0
replies
482
views
Human to mouse SNP conversion
liftOver SNP GWASTools
13 months ago bonheur • 0
0
votes
1
reply
1.1k
views
SNP annotation
SNPRelate SNP GWASTools Annotation GWASdata
updated 2.3 years ago by ▴ 870 • written 2.4 years ago by • 0
0
votes
3
replies
1.4k
views
GWATools use in creating ncdf files
SNP cdf GWASTools SNP cdf GWASTools
updated 10.9 years ago by ▴ 60 • written 10.9 years ago by ▴ 870
0
votes
2
replies
394
views
GENESIS: Can not use GdsGenotypeReader to read a gds file
GENESIS GWASTools GDSfile
updated 4 months ago by ▴ 870 • written 4 months ago by • 0
0
votes
5
replies
1.7k
views
GWATools use in creating ncdf files
SNP Annotation cdf GWASTools SNP Annotation cdf GWASTools
updated 10.9 years ago by ▴ 60 • written 10.9 years ago by ▴ 870
0
votes
2
replies
1.2k
views
GWASTools mendelList Constructor
GWASTools GWASTools
updated 11.6 years ago by ▴ 870 • written 11.6 years ago by ▴ 60
0
votes
1
reply
1.5k
views
GWASTools for analyzing Canine_HD genotyping data
Organism cdf GWASTools Organism cdf GWASTools
11.2 years ago Stephanie M. Gogarten ▴ 870
0
votes
0
replies
1.2k
views
A question about GWASTools package
cdf GWASTools cdf GWASTools
11.1 years ago Stephanie M. Gogarten ▴ 870
0
votes
0
replies
1.9k
views
GWASTools
Organism GWASTools Organism GWASTools SNPRelate
11.1 years ago Stephanie M. Gogarten ▴ 870
0
votes
0
replies
871
views
GWATools use in creating ncdf files
cdf GWASTools cdf GWASTools
11.0 years ago Stephanie M. Gogarten ▴ 870
0
votes
3
replies
2.5k
views
Affymetrix CEL files
cdf GWASTools cdf GWASTools
updated 11.0 years ago by 65k • written 11.0 years ago by ▴ 870
0
votes
1
reply
1.4k
views
GWATools use in creating ncdf files
SNP Annotation cdf GWASTools SNP Annotation cdf GWASTools
updated 10.8 years ago by ▴ 870 • written 10.8 years ago by ▴ 60
0
votes
1
reply
2.2k
views
GWASTools
cdf GWASTools cdf GWASTools
10.7 years ago Stephanie M. Gogarten ▴ 870
0
votes
0
replies
1.8k
views
snpStats/GWASTools conversion
cdf convert snpMatrix snpStats GWASTools cdf convert snpMatrix snpStats GWASTools
10.6 years ago Stephanie M. Gogarten ▴ 870
43 results • Page 1 of 1
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Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123 by Gordon Smyth 50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0
Thank you for your comment! I'll review my code from top to bottom.
Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
So basically you are using HTML markup to set your subscripts and whatnot, and then `element_markdown` does the rest.
Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k
Oh snap. Foiled again. Here it is with spaces & ge ; and & lt ;
Votes
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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