Could someone please post an example of how to calculate strand bias using samtools. I appear to be blocked from that site. Thank you.
-
-
Strand bias is output in VCF/BCF files, so the way to calculate that would just be to call SNPs (just google for the exact commands, if you can't connect to the site, then just look at google's cached copy). -
strand bias and samtools
I am blocked using the cache version as well. Can you please post an example? Thank you.Comment
-
Your IT people block google?!?! You might want to move, or just have them fired for utter incompetence (though "pebcak" is the more likely culprit).
The example from the sourceforge page is:
Code:samtools mpileup -uf ref.fa aln1.bam aln2.bam | bcftools view -bvcg - > var.raw.bcf bcftools view var.raw.bcf | vcfutils.pl varFilter -D100 > var.flt.vcf
Comment
-
CRISPR/Cas9 sparked the gene editing revolution for both research and therapeutics.1 But this system still showed severe issues that limited its applications. The most prominent were the heavy reliance on PAM sequences, delivery limitations, double-stranded breaks that prompt unintended edits and cell death, and editing inefficiency (both in targeting and in knock-in reliability).
Despite this, “CRISPR helped turn genome editing from a specialized technique into...07-31-2026, 11:01 AM -
Proteomics platforms are evolving rapidly, with advances in mass spectrometry and affinity-based approaches expanding what researchers can detect and at what scale. As the field moves toward deeper proteome coverage and clinical applications, scientists face an increasingly complex landscape of tools. This article will explore how researchers are navigating these choices to find the right platform for their work.
The systematic characterization of the human proteome has...07-20-2026, 11:48 AM
Comment