Difference between revisions of "SNAP 2016"
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== Introduction == | |||
SNAP, which stands for ''Scalable Nucleotide Alignment Program'' is a fast and accurate read aligner for high-throughput sequencing data. | |||
This SNAP version is not to be confused with the other version of SNAP, namely the Semi-HMM-based Nucleic Acid Parser which you can find [https://wiki.hpcuser.uni-oldenburg.de/index.php?title=SNAP-HMM_2016 here]. | |||
== Installed Version == | |||
At the moment, SNAP is still in its beta phase which is why the installed version is called like this: | |||
SNAP/1.0beta.23-foss-2017b | |||
== Using SNAP == | |||
SNAP is installed at the environment hpc-env/6.4 which is to be loaded at first in order to load the SNAP module: | |||
module load hpc-env/6.4 | |||
module load SNAP | |||
Now you can proceed according to the scheme ''snap-aligner <command>'' | |||
== Documentation == | |||
For further information please consult the [http://snap.cs.berkeley.edu/#faq developer's website] where you can find a [http://snap.cs.berkeley.edu/downloads/snap-1.0beta-quickstart.pdf quick start guide] as well as a [http://snap.cs.berkeley.edu/downloads/snap-1.0beta-manual.pdf user manual]. | |||
Please note that the commands displayed there may not be transferable one-to-one. In such cases, replace the 'snap' command with 'snap-aligner'. | |||
Revision as of 10:09, 1 August 2018
Introduction
SNAP, which stands for Scalable Nucleotide Alignment Program is a fast and accurate read aligner for high-throughput sequencing data. This SNAP version is not to be confused with the other version of SNAP, namely the Semi-HMM-based Nucleic Acid Parser which you can find here.
Installed Version
At the moment, SNAP is still in its beta phase which is why the installed version is called like this:
SNAP/1.0beta.23-foss-2017b
Using SNAP
SNAP is installed at the environment hpc-env/6.4 which is to be loaded at first in order to load the SNAP module:
module load hpc-env/6.4 module load SNAP
Now you can proceed according to the scheme snap-aligner <command>
Documentation
For further information please consult the developer's website where you can find a quick start guide as well as a user manual. Please note that the commands displayed there may not be transferable one-to-one. In such cases, replace the 'snap' command with 'snap-aligner'.
