Parameter order
I suspect you have long since figured this out, but while your command line agrees with the order show in the doc, all the examples have the vcf file before the options. Is it also possible that vcf-stats is one of the commands that actually requires the vcf files be compressed
-
vcf-tools vcf-stats sample question
Hi all,
A quick vcf tools question. I am having problems with the -s option to only use listed samples with the vcf-stats tool. When I try the following:
vcf-stats -s Agg50 Agg51 Agg52 Agg53 Agg54 Agg55 Agg56 Agg57 Agg59 -f QUAL=10:200 /mnt/VCFFiles/Aggs.vcf -p /mnt/VCFFiles/Aggsstats
I get the error:
Unknown parameter or nonexistent file: "Agg51". Run -h for help.
at /usr/local64/bin/vcf-stats line 21
main::error('Unknown parameter or nonexistent file: "Agg51". Run -h fo...') called at /usr/local64/bin/vcf-stats line 65
Does anyone know what the problem is, I have tried using a file with the sample list too and it doesn't work.
Thanks,
Rubal7
-
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.
[Article Coming Soon!]...Today, 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 -
During the COVID-19 pandemic, scientists observed that while some individuals experienced severe illness when infected with SARS-CoV-2, others were barely affected. These disparities left researchers and clinicians wondering what causes the wide variations in response to viral infections and what role genetics plays.
Jean-Laurent Casanova, M.D., Ph.D., Professor at Rockefeller University, is a leading expert in this crossover between genetics and infectious...09-09-2024, 10:59 AM
Leave a comment: