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Non-uniform p-value distribution

dna methylation ewas limma written 5 months ago by calen.p.ryan • 0 • updated 5 months ago by h.mon ♦ 32k

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Manhattan Plot in R with non-numeric CHR values

R ewas manhattan plot gwas written 12 months ago by obidobi • 30 • updated 12 months ago by bernatgel • 2.9k

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332

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Illumina 450K quality controls with meffil

ewas snp meffil written 16 months ago by uxue33 • 20

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Recent Replies

A: Extract column which contain <20 exons in a transcript by lessismore • 990
This is really not a bioinformatic question. Anyway, using R, this is the solution. library(...
C: Extract column which contain <20 exons in a transcript by cpad0112 ♦ 15k
use awk, print all the rows where 6th column has values more than or equal to 20 (including colum...
C: How do I know bcftools mpileup command completed? by townsendae • 0
Great! I’ll give that a go, thanks!
C: How do I know bcftools mpileup command completed? by GenoMax ♦ 96k
You would normally use `-o file.out -e file.err` on `sbatch or srun` command line submission (or ...
C: What dataset do I use to annotate a transcriptome? Another transcriptome or a ge by pseudacris • 0
That makes perfect sense, this is very helpful. Thank you very much!
C: Why GATK output haploid GT(genotype) even though my samples are diploid? by haruki • 10
Thank you for your comments. If second individual is missing genotype, it should be "./." beca...
C: RNA-seq ribosomal genes vs proteins by igor ♦ 12k
Good article. Didn't realize they addressed this point so well and that the fractions are consist...
A: How do I know bcftools mpileup command completed? by townsendae • 0
Shoot no I did not. Do you know how I would do that?
C: How do I know bcftools mpileup command completed? by GenoMax ♦ 96k
Hard to tell. This looks like intermediate status output. Did you capture both STDOUT/STDERR to s...
C: Recommendations for genome-wide genotyping platform, array and data analysis sof by GenoMax ♦ 96k
This disorder is likely polygenic? If you have a lot of samples the SNP arrays will be more cost ...
C: Bacterial RNA-SEQ - Quality Control by GenoMax ♦ 96k
You should first scan/trim this data before re-running FastQC. Post that result here. As @swbarne...
A: How to transform the deg gene list from seurat to a gene list input to clusterPr by Pancreas Pratik • 110
Sorry for lateness, I wanted to do something similar. This is what I did for reference: **Using...

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