biological-databases
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biological-databases [2020/04/08 09:30] – aorth | biological-databases [2023/10/09 11:18] (current) – aorth | ||
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Some of the most common biological sequence databases are available on the HPC for you to use with tools like BLAST. Below you can find the list of them, their location on the system, and the last time they were updated. | Some of the most common biological sequence databases are available on the HPC for you to use with tools like BLAST. Below you can find the list of them, their location on the system, and the last time they were updated. | ||
- | We endeavor to keep this list updated as the One True List™. | ||
^Name ^Comments | ^Name ^Comments | ||
- | | nr/nt | NCBI nucleotide collection | 2019-06-20 | + | | nt | NCBI nucleotide collection |
- | | nr/nt | NCBI protein collection | 2019-06-20 | + | | nr | NCBI protein collection |
- | | UniProt' | + | | UniProt' |
| UniProt' | | UniProt' | ||
| UniProt' | | UniProt' | ||
Line 26: | Line 25: | ||
---- | ---- | ||
- | ¹ Use the following to determine the date of a BLAST database: | ||
- | < | + | ==== Notes ===== |
- | $ blastdbcmd -info -db nt | grep Date | + | 1. Use the following to determine the date of a BLAST database: |
- | </ | + | |
+ | < | ||
+ | $ blastdbcmd -info -db nt | grep Date</ | ||
+ | |||
+ | 2. In 2019 [[https:// | ||
+ | |||
+ | ''/ |
biological-databases.txt · Last modified: 2023/10/09 11:18 by aorth