shawpa

I'm wondering if there is a way to link the meta data to the annotation result for non-gene part annotation. For example, if you do the following, you can get...

output ref/ref genotypes

1

Is there a way to get this to output ref/ref (0/0) genotypes? I want to be able to compare different samples and need the allele counts regardless of genotype.

not finding samtools error

1

I am receiving the following error. The issue appears to be that samtools isn't in my BS-Snper directory. It is installed on its own. Can't exec "/shared/bin/BS-Snper/samtools-0.1.19/samtools": Permission denied at...

differences in pvalues after updating methylSig

11

I have been trying to work with the updated version of methylSig for the last couple weeks. I was reanalyzing data that I put through the old methylSig program and...

help combining bismark pipeline with methylated UMIs

8

I have a whole genome em-seq methylation library with dual indexes as well as methylated UMI's at the beginning of each R1 and R2. These are from Twist and were...