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rsem-software
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rsem-software [2015/07/23 17:00] joguya |
rsem-software [2018/11/18 11:02] (current) aorth |
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| ====== RSEM ====== | ====== RSEM ====== | ||
| - | RSEM(RNA-Seq by Expectation-Maximization) is an accurate quantification of gene and isoform expression from RNA-Seq data. | + | RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data. |
| - | * Version: 1.2.21 | + | * Version: 1.3.1 |
| * Added: February, 2015 | * Added: February, 2015 | ||
| - | * Updated: July, 2015 | + | * Updated: November, 2018 |
| - | * Link: http://deweylab.biostat.wisc.edu/rsem/ | + | * Link: https://deweylab.github.io/RSEM/ |
| === Usage === | === Usage === | ||
| - | * Show all available versions of RSEM<code>module avail RSEM</code> | + | Show all available versions: |
| - | * Load RSEM module: <code>module load RSEM/1.2.21</code> | + | |
| + | <code>$ module avail RSEM</code> | ||
| + | |||
| + | Load one version into your environment: | ||
| + | <code>$ module load RSEM/1.3.1</code> | ||
| === Installation === | === Installation === | ||
| - | *Download & build/compile it<code> | + | Notes from the sysadmin during installation: |
| - | wget http://deweylab.biostat.wisc.edu/rsem/src/rsem-1.2.21.tar.gz | + | |
| - | tar -xvf rsem-1.2.21.tar.gz | + | <code>$ cd /tmp |
| - | cd rsem-1.2.21 | + | $ wget https://github.com/deweylab/RSEM/archive/v1.3.1.tar.gz |
| - | scl enable devtoolset-2 bash | + | $ tar xf v1.3.1.tar.gz |
| - | module load bowtie2 | + | $ cd RSEM-1.3.1 |
| - | make | + | $ sudo yum install gcc-c++ |
| - | sudo mkdir /export/apps/RSEM/1.2.21/ | + | $ make |
| - | sudo cp -r . /export/apps/RSEM/1.2.21/ | + | $ sudo mkdir -p /export/apps/RSEM/1.3.1 |
| - | </code> | + | $ sudo chown aorth /export/apps/RSEM/1.3.1 |
| + | $ make prefix=/export/apps/RSEM/1.3.1 install | ||
| + | $ sudo chown -R root:root /export/apps/RSEM/1.3.1</code> | ||
rsem-software.1437660035.txt.gz · Last modified: 2015/07/23 17:00 by joguya
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