sumatra
fast and exact comparison and clustering of sequences
Install
- All systems
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curl cmd.cat/sumatra.sh
- Debian
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apt-get install sumatra - Ubuntu
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apt-get install sumatra - Kali Linux
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apt-get install sumatra - Windows (WSL2)
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sudo apt-get updatesudo apt-get install sumatra - Raspbian
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apt-get install sumatra - Dockerfile
- dockerfile.run/sumatra
sumatra
fast and exact comparison and clustering of sequences
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.