BLAST Databases-Sapelo2: Difference between revisions
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[[Category:Sapelo2]][[Category:Software]][[Category:Bioinformatics]][[Category:Bioinformatics Database]] | [[Category:Sapelo2]][[Category:Software]][[Category:Bioinformatics]][[Category:Bioinformatics Database]] | ||
'''Blast database | '''Blast database''' | ||
Each database is located at a directory with name pattern as /db/ncbiblast/''dbname''/''month- | Each database is located at a directory with name pattern as /db/ncbiblast/''dbname''/''month-day-year'', where ''dbname'' is the name of the database, such as nr, nt, taxdb, refseq_rna, refseq_protein, mouse_genome, human_genome, swissprot, etc. | ||
For example, an nr database downloaded on June 04, 2020 will be available in /db/ncbiblast/nr/06042020. | For example, an nr database downloaded on June 04, 2020 will be available in /db/ncbiblast/nr/06042020. | ||
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Available databases: | Available databases: | ||
<pre class="gscript"> | <pre class="gscript"> | ||
/db/ncbiblast/human_genome/ | /db/ncbiblast/human_genome/03012021 | ||
/db/ncbiblast/mouse_genome/ | /db/ncbiblast/mouse_genome/03012021 | ||
/db/ncbiblast/nr/ | /db/ncbiblast/nr/03012021 | ||
/db/ncbiblast/nt/ | /db/ncbiblast/nt/03012021 | ||
/db/ncbiblast/refseq_rna/ | /db/ncbiblast/refseq_rna/03012021 | ||
/db/ncbiblast/refseq_protein/ | /db/ncbiblast/refseq_protein/03012021 | ||
/db/ncbiblast/swissprot/ | /db/ncbiblast/swissprot/03012021 | ||
/db/ncbiblast/taxdb/ | /db/ncbiblast/taxdb/03012021 | ||
</pre> | </pre> | ||
'''Blast database - version 5''' | '''Blast database - old version 5''' | ||
According to https://ncbiinsights.ncbi.nlm.nih.gov/tag/blastdbv5/, around Feb. 04, 2020 NCBI dropped the _v5 suffix for the v5 Blast databases. | |||
An old version of the v5 database (download in June 2019) is located at a directory with name pattern as /db/ncbiblast.v5/''dbname'', where ''dbname'' is the name of the database, such as nr, nt, taxdb, refseq_rna, swissprot, etc. | |||
These old versions of the nr and nt databases still have the _v5 suffix, i.e. they are called nr_v5 and nt_v5, respectively. | |||
[[#top|Back to Top]] | [[#top|Back to Top]] | ||
Revision as of 09:23, 2 March 2021
Blast database
Each database is located at a directory with name pattern as /db/ncbiblast/dbname/month-day-year, where dbname is the name of the database, such as nr, nt, taxdb, refseq_rna, refseq_protein, mouse_genome, human_genome, swissprot, etc.
For example, an nr database downloaded on June 04, 2020 will be available in /db/ncbiblast/nr/06042020.
Available databases:
/db/ncbiblast/human_genome/03012021 /db/ncbiblast/mouse_genome/03012021 /db/ncbiblast/nr/03012021 /db/ncbiblast/nt/03012021 /db/ncbiblast/refseq_rna/03012021 /db/ncbiblast/refseq_protein/03012021 /db/ncbiblast/swissprot/03012021 /db/ncbiblast/taxdb/03012021
Blast database - old version 5
According to https://ncbiinsights.ncbi.nlm.nih.gov/tag/blastdbv5/, around Feb. 04, 2020 NCBI dropped the _v5 suffix for the v5 Blast databases.
An old version of the v5 database (download in June 2019) is located at a directory with name pattern as /db/ncbiblast.v5/dbname, where dbname is the name of the database, such as nr, nt, taxdb, refseq_rna, swissprot, etc.
These old versions of the nr and nt databases still have the _v5 suffix, i.e. they are called nr_v5 and nt_v5, respectively.