How to choose best covered promoters across multiple (few hundred) *.bam genomic alignments?
Hello!
As the title says, I'm looking for a way of extracting a representative, well covered promoters in a few hundred bam alignments, for a simple variant calling and further comparative analysis. I'm willing to sacrifice some samples in favor of more quality promoters.
I'd be grateful for any tips!
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Find reference genome regions spanned by only mapping quality 0 reads in multiple WGS samples
written by William
-
DGE - command line alternatives to R packages?
written by liorglic
-
Germline variant calling from BAM without reference
written by sbstevenlee •
-
The effect of heterozygosity on genome alignment
written by Iseez •
-
Freebayes best practice
written by luca t •
-
Calculating neutrality statistics like Tajima D with structural variants
written by lucas.lochovsky •
-
Phasing Confidence Values using Shapeit2
written by Mike Vermeulen •
-
Using GATK's HaplotypeCaller or Mutect2 for somatic cancer samples with no normal panel
written by jsneaththompson
-
Docker - one image to rule them all?
written by Manuel
-
What Agilent Interval Files (.Bed) Should I Use For Exome Variant Calling With Gatk?
written by newDNASeqer
