I think you may find this link helpful
Pileup is now depreciated.
-
In the latest release, its in the misc folder. And I think the latest release has a vcf2fq subroutine in vcfutils, but it's slow because you have to make a massive all-points .bcf file, and neither program will correct for indels.Leave a comment:
-
How to get consensus sequence from .sam file?
I'm trying to get consensus sequence from sam file according to the instruction from samtools website as below.
samtools pileup -cf ref.fa aln.bam | samtools.pl pileup2fq -D100 > cns.fastq
However, there is actually no samtools.pl. Is there any way I could get the consensus sequence from sam file?
Thanks
-
Non-coding RNAs (ncRNAs) do not code for proteins but play important roles in numerous cellular processes including gene silencing, developmental pathways, and more. There are numerous types including microRNA (miRNA), long ncRNA (lncRNA), circular RNA (circRNA), and more. In this article, we discuss innovative ncRNA research and explore recent technological advancements that improve the study of ncRNAs.
Nobel Prize for MicroRNA Discovery
This week,...10-07-2024, 08:07 AM -
Metagenomics has improved the way researchers study microorganisms across diverse environments. Historically, studying microorganisms relied on culturing them in the lab, a method that limits the investigation of many species since most are unculturable1. Metagenomics overcomes these issues by allowing the study of microorganisms regardless of their ability to be cultured or the environments they inhabit. Over time, the field has evolved, especially with the advent...09-23-2024, 06:35 AM
Leave a comment: