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Correlating WGCNA modules to Diseased/Not-Diseased Trait

traits wgcna modules written 18 months ago by RNAseqer • 150 • updated 18 months ago by andres.firrincieli • 1.1k

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346

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PowerMarker for association analyses Input file not working for quantitative traits

powermarker traits case-control snp written 18 months ago by 17501199 • 0

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4.2k

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Plotting traits on phylogenetic tree in R - issue with aligning traits

traits R phylogenetic tree graphics written 5.8 years ago by ch_at • 10 • updated 2.7 years ago by Biostar ♦♦ 20

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Recent Replies

A: Biopython byte positions are not compatible with bgzip by Ahill • 1.9k
From the [bgzip man page][1] it looks like the command line bgzip -b option expects zero-based un...
A: Error in y - mu : non-numeric argument to binary operator - linear regression lo by Sam • 3.3k
One of your gene might have non-numeric content. You can check that by outputting i in your loo
C: Bam files not accepted in dba.count by corinne_hutfilz • 0
Thanks Pierre, Quickcheck exited without error. I did generate an index for file_sorted_bypositi...
C: Understanding TCGA's ASCAT copy number data by loughrae • 50
I'll do that, cheers :)
C: Adjusting for confounding variables in RNA-SEQ Differential Expression Analysis by Kevin Blighe ♦ 71k
As I understand you do indeed just want a formula of form: GENE ~ age + sex ..or: GENE...
C: Adjusting for confounding variables in RNA-SEQ Differential Expression Analysis by Kevin Blighe ♦ 71k
These models should preferably be run on, e.g., the regularised log or variance-stabilised expres...
C: Bam files not accepted in dba.count by Pierre Lindenbaum ♦ 134k
what is the output of samtools quickcheck file_sorted_byposition.bam is file_sorted_byposi...
C: Understanding TCGA's ASCAT copy number data by Kevin Blighe ♦ 71k
No problem and, yes, still a few uncertainties there about what the data really is. It seems that...
A: Medaka tools annotation missing QUAL values by jpn • 0
Hi. Did you figure this out? I have the same issue.
C: The maximum number of peaks in a ChIP-seq data (bigWig format) by prgrmmr70 • 0
I download bigWig file from the following link and it seems that there are bam file as well: htt...
C: Extracting CDS from fragmented assemblies by ebaldwin • 20
Thanks for the input. It seems every task I do in bioinformatics is not standard! I'm consideri...
A: Bowtie2 to map multiple fastq.gz files? by karlitavasco87 • 0
I found the problem. Instead of a hyphen "-" I had dashes "–" for my -2 and -S. Now it is working!

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