Experiments with DNA and protein search using sequenceserver
Colima or Docker desktop is required. The scripts in bin/ assume colima.
Detailed instructions can be found at https://sequenceserver.com/doc/#installing
Note that all commands should be executed from the root of this repository.
To start sequenceserver:
> ./bin/dockerstart
> ./bin/startserver
If all goes well you will be prompted to create relevant database files. Default action is to just press enter for all questions unless you know better.
Finally you can access the webinterface on
This demo comes preloaded with fasta files for selected hemoglobin sequences. To cover a wide variety of species the following were selected: Home sapiens (you), Pan paniscus (Bonobo), Canis lupus (Wolf), Gallus gallus (Chicken), Danio rerio (puffer fish), Mizuhopecten yessoensis (Japanese scallop).
Priyam A, Woodcroft BJ, Rai V, Moghul I, Munagala A, Ter F, Chowdhary H, Pieniak I, Maynard LJ, Gibbins MA, Moon H, Davis-Richardson A, Uludag M, Watson-Haigh N, Challis R, Nakamura H, Favreau E, Gómez EA, Pluskal T, Leonard G, Rumpf W & Wurm Y. Sequenceserver: A modern graphical user interface for custom BLAST databases. Molecular Biology and Evolution (2019)