biological-databases
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biological-databases [2019/03/13 19:45] – aorth | biological-databases [2019/03/13 20:12] – aorth | ||
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We endeavor to keep this list updated as the One True List™. | We endeavor to keep this list updated as the One True List™. | ||
- | ^Name ^Version Number | + | ^Name ^Version Number |
| NCBI nr/nt nucleotide collection | N/A | 2018-11-24 | ''/ | | NCBI nr/nt nucleotide collection | N/A | 2018-11-24 | ''/ | ||
| NCBI nr/nt protein collection | N/A | 2018-08-16 | ''/ | | NCBI nr/nt protein collection | N/A | 2018-08-16 | ''/ | ||
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| UniProt' | | UniProt' | ||
+ | ==== Using These Databases ==== | ||
+ | To use these databases you generally need to set an environment variable pointing to the location of the database before running your program. For example, to use '' | ||
+ | |||
+ | < | ||
+ | $ export BLASTDB=/ | ||
+ | $ blastn -db nt -query file.seq -out blast.out | ||
+ | </ | ||
+ | |||
+ | ==== Notes ==== | ||
¹ Use the following to determine the date of a BLAST database: ''/ | ¹ Use the following to determine the date of a BLAST database: ''/ |
biological-databases.txt · Last modified: 2023/10/09 11:18 by aorth