Blastdbcmd-single-2.6.0

Owned by upendra kumar Devisetty
Mar 26, 2018
1 min read

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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