Hi,
I have used BWA to map reads from ~45 individuals of my favorite species to a reference (haploid) mitochondrial DNA sequence. My goal...
6 results in 0.0029 seconds.
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multisample variant calling and consensus sequences
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consensus sequence with samtools and bcftools 1.2
Hi,
I want to build a consensus sequence for a small region of the genome from an individual in 1000genomes. Here's what I did:
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Samtools consensus sequence error
Dear All
I am trying to make consensus sequences using command
samtools mpileup -uf ref.fa aln.bam | bcftools view -cg - | vcfutils.pl... -
vcfutils to get consensus sequence
There have been several posts about this, but it has been a while, and my queries are not completely answered, so thought I would put it down again.... -
vcfutils.pl variant filtering
hi all
I would like to know why the variant below is filtered when I use the default parameters with vcfutils.pl varFilter.
CFA18 1805... -
mpileup consensus behaviour
I am wondering if anyone has any experience calling a consensus genotype from mpileup data. I am curious how the suggested command from samtools docu...
