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ea-utils-software [2015/10/08 15:49]
joguya [Usage]
ea-utils-software [2018/11/18 12:14] (current)
aorth
Line 1: Line 1:
-====== ​pairfq ​====== +====== ​ea-utils ​====== 
-Sync paired-end FASTA/Q files and keep singleton reads.+Command-line tools for processing biological sequencing data. Barcode demultiplexing,​ adapter trimming, etc. Primarily written to support an Illumina based pipeline ​but should work with any FASTQs.
  
 ===== Information ===== ===== Information =====
  
-  * Version: ​0.14.4+  * Version: ​1.04.807
   * Added: October, 2015   * Added: October, 2015
-  * Link: https://​github.com/sestaton/Pairfq+  ​* Updated: November, 2018 
 +  ​* Link: https://expressionanalysis.github.io/ea-utils/
  
 ===== Usage ===== ===== Usage =====
  
-See versions of pairfq which are available:​ +See available ​versions
-<​code>​$ module avail pairfq</​code>​+<​code>​$ module avail ea-utils</​code>​
  
-Load and run pairfq+Load one version into your environment
-<​code>​$ module load pairfq/0.14.+<​code>​$ module load ea-utils/1.04.807</​code>​
-$ pairfq</​code>​+
  
 ===== Installation ====== ===== Installation ======
 Notes from the sysadmin during installation:​ Notes from the sysadmin during installation:​
  
-<​code>​$ wget https://​github.com/​sestaton/Pairfq/archive/v0.14.4.tar.gz +<​code>​$ cd /tmp 
-tar -xvf v0.14.4.tar.gz +$ wget https://​github.com/​ExpressionAnalysis/ea-utils/archive/1.04.807.tar.gz 
-$ cd Pairfq-0.14.4 +sudo yum install gsl-devel perl-Test-Base 
-$ sudo mkdir -p /​export/​apps/​pairfq/​0.14.+$ tar xf 1.04.807.tar.gz 
-$ sudo chown -R joguya:​joguya ​/export/​apps/​pairfq/​0.14.4 +$ cd ea-utils-1.04.807/clipper
-$ module load perl/​5.16.3.1603 +
-$ perl Makefile.PL PREFIX=/​export/​apps/​pairfq/​0.14.4+
 $ make $ make
-make test +sudo mkdir -p /​export/​apps/​ea-utils/​1.04.807 
-$ make install +$ sudo chown aorth /​export/​apps/​ea-utils/​1.04.807 
-$ sudo chown -R root:root /​export/​apps/​pairfq/0.14.+$ make install ​PREFIX=/​export/​apps/​ea-utils/​1.04.807 
-</​code>​+$ sudo yum remove gsl-devel perl-Test-Base 
 +$ sudo chown -R root:root /​export/​apps/​ea-utils/1.04.807</​code>​
ea-utils-software.1444308559.txt.gz · Last modified: 2015/10/08 15:49 by joguya