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rsem-software [2015/07/23 14:00]
joguya
rsem-software [2018/11/18 08:02] (current)
aorth
Line 1: Line 1:
 ====== 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: July2015 +  * Updated: November2018 
-  * 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.
 +$ 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 14:00 by joguya