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replicating PLINK --genome pairwise IBD calculations.
PLINK IBD
8.4 years ago federico.calboli • 0
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Genetic Association analysis using four siblings among which three were affected and one was normal
genetics plink linkage disequilibrium
8.6 years ago li lilingdu ▴ 450
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permutation with plink
illumina plink permutation
updated 8.7 years ago by 68k • written 8.7 years ago by • 0
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Error reading vcf converted from bed file
readvcf plink file conversion bed bioc-devel
9.9 years ago mjsduncan • 0
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suggested r package
plink
10.2 years ago rsalz2020 • 0
5 results • Page 1 of 1
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Comment: GSVA on RNAseq data by Bob ▴ 10
Hi Robert, We were actually very interested in this problem in particular. It seems that using counts for gene sets with varying gene leng…
Comment: plyranges: find exact GRanges match keeping metadata columns by Michael Love 43k
But I will say if you are doing a lot of these, and require exact match, just making it a simple key -- eg `paste0(start,".",end)` -- seems…
Answer: Comparing Mock vs Infected in WT and Knockout Cells by Michael Love 43k
I recommend for questions about statistical analysis plan to meet with a local statistician or someone familiar with linear models in R. I …
Answer: In WGCNA, what networkType should be used in pickSoftThreshold for a Signed Nowi by ATpoint ★ 4.6k
WGCNA is no Bioconductor package. Consider biostars.org or bioinformatics Reddit, but if you do show a bit more effort please. People appre…
Answer: Error: lexical error: invalid char in json text (alevin-seurat) by ATpoint ★ 4.6k
Two things: 1) See https://bioconductor.org/packages/release/bioc/vignettes/tximport/inst/doc/tximport.html#Alevin -- Your `colon_file`…
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A: how to extract Granges not overlapping with other ganges?
DESeq2 1.20.0 lfcshrink function
A: LIMMA on RT-PCR data
Answer: Efficiently working with HDF5-backed SingleCellExperiments
Efficiently working with HDF5-backed SingleCellExperiments
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