Showing : snpStats • reset
1
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Error in ld(): STRING_ELT() can only be applied to a 'character vector', not a 'NULL'
ld() snpStats
4.1 years ago Anastasiia • 0
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0
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1.1k
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Extract flanking sequences SNP without reference genome
SNPData snpStats SNP flankingsequences
4.8 years ago Amber • 0
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0
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980
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Coercion of a numeric matrix into a SnpMatrix
snpStats
5.9 years ago schandry • 0
0
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1
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1.4k
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GWAS: access Imputation probabilities: snpStats
gwas snpstats GWAS Imputation snpStats
7.5 years ago GENOMIC_region • 0
1
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1
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1.6k
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reading ped error when using the snpStats library
snpstats ped file R
8.2 years ago kzelaya2 ▴ 10
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0
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1.4k
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snp.rhs.estimates and/or .tests and extracting results
snpStats additive model
8.9 years ago natalie.jean.mcdonald • 0
1
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0
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1.5k
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Error when computing ld with snpStats in big samples
software error snpstats `ld
9.6 years ago carlos.ruiz • 0
1
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1
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2.0k
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Write the "map" DataFrame from genotypeToSnpMatrix() to a text file
variantannotation DataFrame snpstats
10.2 years ago TimothéeFlutre ▴ 80
1
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2
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2.4k
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Automatic NA values generated by the ld() function of snpStats package
snpStats BioConductor LD Linkage Disequilibrium NA
10.9 years ago remi.tournebize ▴ 10
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1.6k
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snp analysis GWAS
snpstats
updated 11.1 years ago by ★ 13k • written 11.1 years ago by • 0
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2.1k
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(snpStats) Error: Error in terms.formula(formula, special, data = data) : invalid term in model formula
software error snpStats
11.2 years ago vickygarfield87 • 0
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0
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1.3k
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Are the 'trait' and 'phenotype' objects in the snpStats snp.rhs.estimates command the same thing?
snpStats
11.2 years ago vickygarfield87 • 0
0
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1
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2.1k
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snpStats reference allele used in genetic associations?
SNP Category snpStats SNP Category snpStats
updated 11.7 years ago by 6.7k • written 11.7 years ago by ★ 13k
0
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3
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2.1k
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Error reading imputed file using snpStats package
SNP snpStats SNP snpStats
updated 12.0 years ago by 6.7k • written 12.0 years ago by ▴ 50
0
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1
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2.0k
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[R] freetype 2.5.2, problem with the survival package, build R 2.15.x with gcc 4.8.x
Regression Survival snpStats Regression Survival snpStats
12.1 years ago David Winsemius ▴ 40
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0
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2.4k
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Plink Data for Fst Calculations
snpStats snpStats
12.1 years ago Voke AO ▴ 760
0
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3
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1.5k
views
SNPstats package bug report
snpStats snpStats
12.1 years ago Guest User ★ 13k
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0
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2.2k
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snpStats/GWASTools conversion
cdf convert snpMatrix snpStats GWASTools cdf convert snpMatrix snpStats GWASTools
12.3 years ago Stephanie M. Gogarten ▴ 890
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0
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1.4k
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snpStats Fst Implementation
snpStats snpStats
12.3 years ago Voke AO ▴ 760
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1
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1.8k
views
col.summary error in snpStats
SNP Sequencing Annotation snpMatrix snpStats SNP Sequencing Annotation snpMatrix snpStats
updated 12.8 years ago by 6.7k • written 12.8 years ago by ▴ 10
0
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1
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1.6k
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snpStats --- MAF in Pedigrees
snpStats snpStats
updated 13.0 years ago by 6.7k • written 13.0 years ago by ▴ 60
0
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0
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1.3k
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statistics from snpStats objects
SNP snpStats SNP snpStats
13.6 years ago james power ▴ 10
0
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3
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3.6k
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GWAS with Affymetrix SNP 6.0
SNP oligo snpMatrix snpStats SNP oligo snpMatrix snpStats
updated 13.6 years ago by 6.7k • written 13.6 years ago by ▴ 20
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4
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2.1k
views
snpStats, read.long, alleles in two columns
SNP Genetics snpStats SNP Genetics snpStats
updated 13.9 years ago by ▴ 20 • written 13.9 years ago by ▴ 30
0
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2
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1.8k
views
Weird error when installing VariantAnnotation and/or snpStats (whether from SVN or using biocLite)
snpStats snpStats
updated 14.3 years ago by 25k • written 14.3 years ago by ★ 4.2k
25 results • Page 1 of 1
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Comment: Question about the filterByExpr function inputs in edgeR by Gordon Smyth 53k
Regarding edgeR v4 filtering, I didn't mention anything about a minimum count of 10 but rather said "a positive count". So a minimalistic f…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by JKim • 0
Hi Emily, He left some comments regarding normalization. Here is the relevant quote: > The EList object produced by dpcQuant(), containi…
Comment: Joining different datasets and analyzing using the group-specific condition effe by James W. MacDonald 68k
Yes, making a group factor simplifies things, and you will need a new column for disease subject to avoid having a design that is not full …
Comment: Question about the filterByExpr function inputs in edgeR by mohammedtoufiq91 ▴ 10
@gordonsmyth Yes, Gender is more a nuisance factor in our experiment, and our primary interest is to compare groups. I will just use filter…
Comment: Joining different datasets and analyzing using the group-specific condition effe by jason.chai • 0
Thank you very much. I had read that and wondered if I used the recommendation in DESeq vignette, I would lose the pairing between groups? …
Votes
Answer: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
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