quast-software
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quast-software [2015/07/27 08:25] – joguya | quast-software [2017/10/04 07:09] – aorth | ||
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====== quast ====== | ====== quast ====== | ||
+ | QUAST (QUality ASsessment Tool) evaluates genome assemblies by computing various metrics. | ||
===== Information ===== | ===== Information ===== | ||
Line 5: | Line 6: | ||
* Latest Version: 3.0 | * Latest Version: 3.0 | ||
* Added: September, 2014 | * Added: September, 2014 | ||
- | * Updated: | + | * Updated: |
- | * Link: http://bioinf.spbau.ru/en/quast | + | * Link: http://quast.sourceforge.net/quast |
===== Usage ===== | ===== Usage ===== | ||
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See versions of quast which are available: | See versions of quast which are available: | ||
< | < | ||
+ | |||
+ | Load one version into your environment and run it: | ||
+ | < | ||
+ | $ quast.py --help</ | ||
===== Installation ====== | ===== Installation ====== | ||
Notes from the sysadmin during installation: | Notes from the sysadmin during installation: | ||
- | < | + | < |
- | tar -xvf quast-3.0.tar.gz | + | $ wget https:// |
- | sudo mkdir -p / | + | $ tar xf quast-4.5.tar.gz |
- | sudo cp -rv quast-3.0/ | + | $ cd quast-4.5 |
- | sudo chown -R joguya: | + | $ sudo mkdir -p / |
- | cd / | + | $ sudo chown aorth / |
- | module load python/2.7.8 | + | $ $ module load python/3.5.3 |
- | cd libs/MUMmer3.23-linux | + | $ python |
- | make | + | $ . / |
- | cd - | + | $ pip install |
- | ./metaquast.py --test | + | $ ./setup.py install_full |
- | sudo chown -R root:root / | + | $ sudo chown -R root:root / |
- | </ | + | |
- | ===== Running ===== | + | You can test the installation using the test data from the source tarball: |
- | After loading | + | |
- | < | + | < |
quast-software.txt · Last modified: 2020/04/07 08:27 by aorth