metaphlan-software
Differences
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| metaphlan-software [2021/08/29 08:12] – aorth | metaphlan-software [2023/07/19 08:36] (current) – aorth | ||
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| MetaPhlAn is a computational tool for profiling the composition of microbial communities (Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data (i.e. not 16S) with species-level. With the newly added StrainPhlAn module, it is now possible to perform accurate strain-level microbial profiling. | MetaPhlAn is a computational tool for profiling the composition of microbial communities (Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data (i.e. not 16S) with species-level. With the newly added StrainPhlAn module, it is now possible to perform accurate strain-level microbial profiling. | ||
| - | * Latest Version: | + | * Latest Version: |
| * Added: August, 2021 | * Added: August, 2021 | ||
| + | * Updated: July, 2023 | ||
| * Link: https:// | * Link: https:// | ||
| ===== Usage ===== | ===== Usage ===== | ||
| - | Show all available versions | + | Show all available versions: |
| < | < | ||
| Load one version into your environment and run it: | Load one version into your environment and run it: | ||
| - | < | + | < |
| $ metaphlan -h</ | $ metaphlan -h</ | ||
| Line 24: | Line 25: | ||
| Notes from the sysadmin during installation: | Notes from the sysadmin during installation: | ||
| - | < | + | < |
| - | $ sudo chown aorth:aorth / | + | $ sudo mkdir -p / |
| - | $ module load python/3.8 | + | $ sudo chown aorth:aorth / |
| - | $ python3 | + | $ mkdir /export/ |
| - | $ source / | + | $ python |
| - | $ pip install --upgrade | + | $ source / |
| - | $ pip install metaphlan==3.0.13 | + | $ pip install --upgrade pip setuptools wheel |
| + | $ pip install metaphlan==4.0.6 | ||
| + | $ module load bowtie2/ | ||
| $ metaphlan --install | $ metaphlan --install | ||
| - | $ sudo chown -R root:root / | + | $ sudo chown -R root:root / |
metaphlan-software.1630224775.txt.gz · Last modified: 2021/08/29 08:12 by aorth