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--- biological-databases [2019/03/12 09:47] – added the first db listing jean-baka
+++ biological-databases [2019/03/12 10:02] – jean-baka
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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, etc. Below you can find the list of them, their source URL and the last time they were updated, with links to the update scripts that our system administrator use to perform updates.
+We endeavor to keep this list updated as the One True List™.
-^Name        ^Version number   ^Last updated                ^Where it resides              ^
-|NCBI|2.1.4|end Nov 2018|''/export/data/bio/ncbi/blast/db''|
+^Name        ^Version number   ^Last updated                ^Where it resides              ^How to use   ^
+|NCBI nr/nt nucleotide collection|N/A|24 Nov 2018|''/export/data/bio/ncbi/blast/db''|use ''BLASTDB=/export/data/bio/ncbi/blast/db'' in your Bash script|
+|NCBI nr/nt protein collection|N/A|16 Aug 2018|''/export/data/bio/ncbi/blast/db''|use ''BLASTDB=/export/data/bio/ncbi/blast/db'' in your Bash script|
+|UniProt's UniProtKB/Swiss-Prot (manually curated)|N/A|?|''/export/data/bio/uniprot/blast/db''|use ''BLASTDB=/export/data/bio/uniprot/blast/db'' in your Bash script|