BLAST Databases-Sapelo2: Difference between revisions

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(Created page with "Category:Sapelo2Category:SoftwareCategory:BioinformaticsCategory:Bioinformatics Database Lasted version is always at /db/ncbiblast/nrte/latest/ and /db/ncb...")
 
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[[Category:Sapelo2]][[Category:Software]][[Category:Bioinformatics]][[Category:Bioinformatics Database]]     
[[Category:Sapelo2]][[Category:Software]][[Category:Bioinformatics]][[Category:Bioinformatics Database]]     
Lasted version is always at /db/ncbiblast/nrte/latest/ and /db/ncbiblast/refseq/latest/


the updates include gss, htgs, version information is at /db/ncbiblast/*/latest/gbrel.txt
'''Blast database - version 4'''


These databases update at every first business day of the month. The updates may take 1-3 days. If user schedules job running over this time period, please use absolute path instead of latest link to avoid disruption.
Each database is located at a directory with name pattern as /db/ncbiblast/''dbname''/''year-month-date'', where ''dbname'' is the name of the database, such as nr, nt, taxdb, refseq_rna, refseq_protein, mouse_genome, human_genome, swissprot, etc.  


Each database is located at directory with name pattern as /db/ncbiblast/*/month-date-year, e.g. April 1, 2009, the database is at /db/ncbiblast/nrte/04012009.
For example, an nr database downloaded on June 04, 2020 will be available in /db/ncbiblast/nr/20200604.


nr, nt, est, ecoli, gss, htgs, cdd
Available databases:
<pre class="gscript">
<pre class="gscript">
/db/ncbiblast/nrte/latest/nr
/db/ncbiblast/human_genome/20200604
/db/ncbiblast/nrte/latest/nt
/db/ncbiblast/mouse_genome/20200604
/db/ncbiblast/nrte/latest/est
/db/ncbiblast/nr/20200604
/db/ncbiblast/nrte/latest/est_human
/db/ncbiblast/nt/20200604
/db/ncbiblast/nrte/latest/est_mouse
/db/ncbiblast/refseq_rna/20200604
/db/ncbiblast/nrte/latest/est_others
/db/ncbiblast/refseq_protein/20200604
/db/ncbiblast/nrte/latest/gss
/db/ncbiblast/swissprot/20200604
/db/ncbiblast/nrte/latest/htgs
/db/ncbiblast/taxdb/20200604
</pre>
</pre>
'''Blast database - version 5'''
Each database 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.
For example, an nr database downloaded on June 04, 2020 will be available in /db/ncbiblast.v5/nr


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Revision as of 22:35, 4 June 2020


Blast database - version 4

Each database is located at a directory with name pattern as /db/ncbiblast/dbname/year-month-date, 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/20200604.

Available databases: 

/db/ncbiblast/human_genome/20200604
/db/ncbiblast/mouse_genome/20200604
/db/ncbiblast/nr/20200604
/db/ncbiblast/nt/20200604
/db/ncbiblast/refseq_rna/20200604
/db/ncbiblast/refseq_protein/20200604
/db/ncbiblast/swissprot/20200604
/db/ncbiblast/taxdb/20200604


Blast database - version 5

Each database 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.

For example, an nr database downloaded on June 04, 2020 will be available in /db/ncbiblast.v5/nr


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