Showing : snpstats • reset
1
vote
2
replies
835
views
Error in ld(): STRING_ELT() can only be applied to a 'character vector', not a 'NULL'
ld() snpStats
14 months ago Anastasiia • 0
0
votes
0
replies
374
views
Extract flanking sequences SNP without reference genome
SNPData snpStats SNP flankingsequences
22 months ago Amber • 0
0
votes
0
replies
295
views
Coercion of a numeric matrix into a SnpMatrix
snpStats
3.0 years ago schandry • 0
0
votes
1
reply
522
views
GWAS: access Imputation probabilities: snpStats
gwas snpstats GWAS Imputation snpStats
4.6 years ago GENOMIC_region • 0
1
vote
1
reply
850
views
reading ped error when using the snpStats library
snpstats ped file R
5.3 years ago kzelaya2 ▴ 10
0
votes
0
replies
754
views
snp.rhs.estimates and/or .tests and extracting results
snpStats additive model
5.9 years ago natalie.jean.mcdonald • 0
1
vote
0
replies
754
views
Error when computing ld with snpStats in big samples
software error snpstats `ld
6.7 years ago carlos.ruiz • 0
1
vote
1
reply
1.2k
views
Write the "map" DataFrame from genotypeToSnpMatrix() to a text file
variantannotation DataFrame snpstats
7.2 years ago TimothéeFlutre ▴ 80
1
vote
2
replies
1.3k
views
Automatic NA values generated by the ld() function of snpStats package
snpStats BioConductor LD Linkage Disequilibrium NA
8.0 years ago remi.tournebize ▴ 10
0
votes
1
reply
994
views
snp analysis GWAS
snpstats
updated 8.2 years ago by 13k • written 8.2 years ago by • 0
0
votes
0
replies
1.3k
views
(snpStats) Error: Error in terms.formula(formula, special, data = data) : invalid term in model formula
software error snpStats
8.2 years ago vickygarfield87 • 0
0
votes
0
replies
748
views
Are the 'trait' and 'phenotype' objects in the snpStats snp.rhs.estimates command the same thing?
snpStats
8.2 years ago vickygarfield87 • 0
0
votes
1
reply
1.2k
views
snpStats reference allele used in genetic associations?
SNP Category snpStats SNP Category snpStats
updated 8.7 years ago by 6.6k • written 8.7 years ago by ★ 12k
0
votes
3
replies
1.3k
views
Error reading imputed file using snpStats package
SNP snpStats SNP snpStats
updated 9.0 years ago by 6.6k • written 9.0 years ago by ▴ 50
0
votes
1
reply
1.3k
views
[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
9.2 years ago David Winsemius ▴ 40
0
votes
0
replies
1.7k
views
Plink Data for Fst Calculations
snpStats snpStats
9.2 years ago Voke AO ▴ 760
0
votes
3
replies
824
views
SNPstats package bug report
snpStats snpStats
9.2 years ago Guest User ★ 12k
0
votes
0
replies
1.4k
views
snpStats/GWASTools conversion
cdf convert snpMatrix snpStats GWASTools cdf convert snpMatrix snpStats GWASTools
9.3 years ago Stephanie M. Gogarten ▴ 820
0
votes
0
replies
923
views
snpStats Fst Implementation
snpStats snpStats
9.4 years ago Voke AO ▴ 760
0
votes
1
reply
1.1k
views
col.summary error in snpStats
SNP Sequencing Annotation snpMatrix snpStats SNP Sequencing Annotation snpMatrix snpStats
updated 9.9 years ago by 6.6k • written 9.9 years ago by ▴ 10
0
votes
1
reply
937
views
snpStats --- MAF in Pedigrees
snpStats snpStats
updated 10.1 years ago by 6.6k • written 10.1 years ago by ▴ 60
0
votes
0
replies
757
views
statistics from snpStats objects
SNP snpStats SNP snpStats
10.7 years ago james power ▴ 10
0
votes
3
replies
2.3k
views
GWAS with Affymetrix SNP 6.0
SNP oligo snpMatrix snpStats SNP oligo snpMatrix snpStats
updated 10.7 years ago by 6.6k • written 10.7 years ago by ▴ 20
0
votes
4
replies
1.2k
views
snpStats, read.long, alleles in two columns
SNP Genetics snpStats SNP Genetics snpStats
updated 10.9 years ago by ▴ 20 • written 10.9 years ago by ▴ 30
0
votes
2
replies
1.1k
views
Weird error when installing VariantAnnotation and/or snpStats (whether from SVN or using biocLite)
snpStats snpStats
updated 11.3 years ago by 25k • written 11.3 years ago by ★ 4.2k
25 results • Page 1 of 1
Recent ...
Replies
Comment: mas5calls function doesn't work; mirna40cdf problem by Berna • 0
Thanks for all answers. I have tried, but still get an error message. Do you know how I can work around this? > library(pd.mir…
Answer: struggling to create a heatmap by ATpoint ★ 2.1k
I am reluctant to read through that wall of code. Here is what would work. Note that prefiltering makes sense before, not after running `DE…
Answer: collapseReplicates error after tximeta by Michael Love 39k
The issue is that `collapseReplicates` just collapses `counts` and doesn't account for multiple assays which you need for e.g. Swish or oth…
Comment: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it by ATpoint ★ 2.1k
That having said, I recommend to inspect the MA-plots (`plotMA()`), at best the ones produced right from `res <- results(dds); plotMA(res)`…
Answer: Which genes are outliers in DESeq2? by ATpoint ★ 2.1k
You can take over some of the lines from `results()` to find them easily: ```r suppressPackageStartupMessages(library(DESeq2)) set.s…
Votes
Significant reporter activity with mpralm function
Answer: I cannot install annotables package in Rstudio (macOS)
Answer: log2 of normalized counts for further analyzes
Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it
Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used
Awards • All
Commentator to Lucia ▴ 40
Popular Question to Ryan • 0
Popular Question to Guido Hooiveld ★ 3.5k
Scholar to James W. MacDonald 62k
Commentator to Michael Love 39k
Locations • All
United States, 3 minutes ago
San Diego, 27 minutes ago
Germany, 53 minutes ago
Baltimore, 1 hour ago
Latvia, 1 hour ago
Traffic: 234 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6