Difference between revisions of "Program to find probes"
From Ucsbgalaxy
(Created page with "project in /home/likewise-open/ADS/oakley/labdata/OpsinGenomes Program flow: 1. Creates a BLAST+ database using sequence.fasta 2. Reads in sequence.fasta sequence by sequence 2…") |
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Program flow: | Program flow: | ||
| − | 1. Creates a BLAST+ database using sequence.fasta | + | *1. Creates a BLAST+ database using sequence.fasta |
| − | 2. Reads in sequence.fasta sequence by sequence | + | *2. Reads in sequence.fasta sequence by sequence |
| − | 2b. creates a hash of all sequence ids to false | + | **2b. creates a hash of all sequence ids to false |
| − | 3. Reads through the sequence.fasta file again, this time running blastn on each sequence | + | *3. Reads through the sequence.fasta file again, this time running blastn on each sequence |
| − | 3b. For each hit, set the hash with the display_id as key to true | + | **3b. For each hit, set the hash with the display_id as key to true |
Revision as of 13:10, 20 February 2014
project in /home/likewise-open/ADS/oakley/labdata/OpsinGenomes
Program flow:
- 1. Creates a BLAST+ database using sequence.fasta
- 2. Reads in sequence.fasta sequence by sequence
- 2b. creates a hash of all sequence ids to false
- 3. Reads through the sequence.fasta file again, this time running blastn on each sequence
- 3b. For each hit, set the hash with the display_id as key to true
