Hello everyone,
I'm trying to sort out getting sleuth working with R. I currently have windows ubuntu subshell running and have installed conda, bioconda, bioconductor, R, kallisto, and sleuth. I'm very confused about the nature of package managers how to keep everything straight between them. Right Kallisto is installed properly and I have generated the abundances.tsv file using one sample paired end reads and the index file I opted to download instead of generate myself. Now I am ready for downstream analysis using the abundances.tsv in sleuth, which was written to work with R. I have installed R and can enter the R prompt via ubuntu. I'm having trouble installing devtools for R / bioconductor and I cannot get sleuth to run properly, I suspect it is something to do with having one too many coding language packages / dependencies and something got convoluted or crossed somewhere. Any advice?
SeqTechno
-
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