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porechop-software [2020/02/27 14:12] (current)
aorth created
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 +====== porechop ======
  
 +Porechop is a tool for finding and removing adapters from Oxford Nanopore reads. Adapters on the ends of reads are trimmed off, and when a read has an adapter in its middle, it is treated as chimeric and chopped into separate reads. Porechop performs thorough alignments to effectively find adapters, even at low sequence identity.
 +
 +===== Information =====
 +
 +  * Version: 0.2.4
 +  * Added: February, 2020
 +  * Link: https://​github.com/​rrwick/​Porechop
 +
 +===== Usage =====
 +
 +See which versions of porechop are available:
 +<​code>​$ module avail porechop</​code>​
 +
 +Load one version into your environment and run it:
 +<​code>​$ module load porechop/​0.2.4
 +$ porechop</​code>​
 +
 +===== Installation ======
 +
 +Notes from the sysadmin during installation:​
 +
 +<​code>​$ git clone https://​github.com/​rrwick/​Porechop.git -b v0.2.4
 +$ cd Porechop
 +$ sudo mkdir -p /​export/​apps/​porechop/​0.2.4
 +$ sudo chown aorth /​export/​apps/​porechop/​0.2.4
 +$ python3 -m venv /​export/​apps/​porechop/​0.2.4
 +$ source /​export/​apps/​porechop/​0.2.4/​bin/​activate
 +$ scl enable devtoolset-7 bash
 +$ python3 setup.py install
 +$ sudo chown -R root:root /​export/​apps/​porechop/​0.2.4</​code>​
porechop-software.txt · Last modified: 2020/02/27 14:12 by aorth