There is a newer version of sequenza-utilsSequenza-utils is The supporting python library for the sequenza R package. Sequenza is a software for the estimation and quantification of purity/ploidy and copy number alteration in sequencing experiments of tumor samples. Sequenza-utils provide command lines programs to transform common NGS file format - such as BAM, pileup and VCF - to input files for the R package.
Accessing sequenza-utils 3.0.0-foss-2020a-Python-3.8.2-R-4.0.0
To load the module for sequenza-utils 3.0.0-foss-2020a-Python-3.8.2-R-4.0.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):
module load sequenza-utils/3.0.0-foss-2020a-Python-3.8.2-R-4.0.0
BEAR Apps Version
For more information visit the sequenza-utils website.
This version of sequenza-utils has a direct dependency on: foss/2020a HTSlib/1.10.2-GCC-9.3.0 Python/3.8.2-GCCcore-9.3.0 R/4.0.0-foss-2020a SAMtools/1.10-GCC-9.3.0 sequenza/3.0.0-foss-2020a-R-4.0.0
This version of sequenza-utils is a direct dependent of: BEAR-Python-MSc-Bioinformatics/2020a-foss-2020a-Python-3.8.2
These versions of sequenza-utils are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.
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Last modified on 2nd June 2021