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salmon-software [2016/11/03 12:32]
joguya [Installation]
salmon-software [2020/10/28 09:11] (current)
aorth
Line 1: Line 1:
 ====== salmon ====== ====== salmon ======
- 
 Salmon is a tool for fast transcript quantification from RNA-seq data. It requires a set of target transcripts (either from a reference or de-novo assembly) to quantify. Salmon is a tool for fast transcript quantification from RNA-seq data. It requires a set of target transcripts (either from a reference or de-novo assembly) to quantify.
  
 ===== Information ===== ===== Information =====
  
-  * Latest Version: 0.7.2+  * Latest Version: 1.3.0
   * Added: September, 2016   * Added: September, 2016
-  * Link: http://salmon.readthedocs.io/en/latest/salmon.html+  * Updated: October, 2020 
 +  * Link: https://salmon.readthedocs.io/en/latest/salmon.html
  
 ===== Usage ===== ===== Usage =====
  
 See which versions of salmon are available: See which versions of salmon are available:
-<code>$ module avail salmon +<code>$ module avail salmon</code>
-</code>+
  
-Load salmon +Load one version of salmon into your environment and run it: 
-<code>$ module load salmon/0.7.2</code>+<code>$ module load salmon/1.3.
 +$ salmon</code>
  
 ===== Installation ====== ===== Installation ======
- 
 Notes from the sysadmin during installation: Notes from the sysadmin during installation:
  
-<code> +<code>$ cd /tmp 
-$ cd /tmp +$ wget https://github.com/COMBINE-lab/salmon/releases/download/v1.3.0/salmon-1.3.0_linux_x86_64.tar.gz 
-$ wget https://github.com/COMBINE-lab/salmon/releases/download/v0.7.2/Salmon-0.7.2_linux_x86_64.tar.gz +$ tar xf salmon-1.3.0_linux_x86_64.tar.gz 
-$ tar -xvf Salmon-0.7.2_linux_x86_64.tar.gz +$ sudo cp -salmon-latest_linux_x86_64  /export/apps/salmon/1.3.0
-$ sudo mkdir -p /export/apps/salmon/0.7.2/ +
-$ sudo cp -r * /export/apps/salmon/0.7.2/+
 </code> </code>
salmon-software.1478176378.txt.gz · Last modified: 2016/11/03 12:32 by joguya