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Blastdbcmd-single-2.6.0

Blastdbcmd-single-2.6.0

Mar 26, 2018

Rationale:

 

Blastdbcmd-single-2.6.0 is used for extracting sequence data from a blast database. It dumps a select set of sequences from a BLAST database

Blastdbcmd-single-2.6.0 is invoked using the following:

  1. Input (s)

    1. Blast Database 

    2. Molecule type

    3. Sequence Identifier (single)

    4. Sequence Range

  2. Output

    1. Default file name - BlastOutput

Please work through the documentation and add your comments on the bottom of this page, or email comments to support@cyverse.org. Thank you.

Test Data

 The test data 

All files are located in the Community Data directory of the iPlant Discovery Environment at the following path: Community Data > iplantcollaborative > example_data > makeblastdb (/iplant/home/shared/iplantcollaborative/example_data/makeblastdb/)

Run Create_BLAST_database-2.6.0__with_parse_seqids_option as following:

  1. Input (s)

    1. Blast Database : /iplant/home/shared/iplantcollaborative/example_data/makeblastdb

    2. Molecule type: protein

    3. Sequence Identifier (single): XP_019168153.1

    4. Sequence Range: 1-10

  2. Output

    1. Default file name - BlastOutput containing the following output

>XP_019168153.1 PREDICTED: GDSL esterase/lipase 1-like [Ipomoea nil] MSSLYSYMYA

 

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