Difference between revisions of "Cutadapt"
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''Note: cutadapt is installed into the python 2.6.5 and so the cutadapt module loads python/2.6.5'' | ''Note: cutadapt is installed into the python 2.6.5 and so the cutadapt module loads python/2.6.5'' | ||
Revision as of 20:26, 20 June 2012
Description
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cutadapt removes adapter sequences from high-throughput sequencing data. This is usually necessary when the read length of the sequencing machine is longer than the molecule that is sequenced, for example when sequencing microRNAs.
Template:App Location
Available versions
- 1.1
Note: cutadapt is installed into the python 2.6.5 and so the cutadapt module loads python/2.6.5
Running the application using modules
To use cutadapt with the environment modules system at HPC the following commands are available:
Get module information for cutadapt:
$module spider cutadapt
Load the default application module:
$module load cutadapt
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_CUTADAPT_DIR - directory where cutadapt is located.
- HPC_CUTADAPT_BIN - executable directory