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mercier created page: home

Celine Mercier
2015-07-17 13:56:57 +02:00
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With the development of next-generation sequencing, efficient tools are needed to handle millions of sequences in reasonable amounts of time.
**Sumatra** is a program developed by the LECA.
**Sumatra** aims to compare sequences in a way that is fast and exact at the same time. This tool has been developed to be adapted to the type of data generated by DNA metabarcoding, i.e. entirely sequenced, short markers.
**Sumatra** computes the pairwise alignment scores from one dataset or between two datasets, with the possibility to specify a similarity threshold under which pairs of sequences that have a lower similarity are not reported. The output can then go through a classification process with programs such as **MCL** or **MOTHUR**.
Currently, **Sumatra** is available as a program that you can download and install on Unix-like machines.
## Installing Sumatra
Download the archive on this page, then untar it, go into the newly created directory and compile:
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cd sumatra_v[x.x.xx]
make
See the user manual included in the archive for a complete documentation.
See the user manual downloadable from this page and included in the archive for a complete documentation.
## See also
[**Sumaclust**](https://git.metabarcoding.org/obitools/sumaclust/wikis/home/) clusters sequences using the same alignment methods as **Sumatra**.
## Download
[sumatra_v1.0.03.tar.gz](https://git.metabarcoding.org/obitools/sumatra/uploads/27d9f6c2fdfa39a1c9ccc051e19b5834/sumatra_v1.0.03.tar.gz)
[sumatra_user_manual.pdf](https://git.metabarcoding.org/obitools/sumatra/uploads/78ccf44699739ee8e2dcafb5fdfefe89/sumatra_user_manual.pdf)