Skip to content
Branch: master
Find file History
Fetching latest commit…
Cannot retrieve the latest commit at this time.
Permalink
Type Name Latest commit message Commit time
..
Failed to load latest commit information.
.csv
README.md
guidecsv_to_fasta.sh
guidecsv_to_order.sh
human_rRNA_150_guides.csv
human_rRNA_150_guides.fasta
human_rRNA_150_guides_to_order.csv

README.md

guide_csv_to_fasta.sh

This script will convert an optimize guides csv output to a fasta file, numbering your guides and labelling them with your filename. If you input optimize_guides_output.csv, you will get optimize_guides_output.fasta.

bash guidecsv_to_fasta.sh optimize_guides_output.csv

guide_csv_to_order.sh

This script will convert an optimize_guides csv output to a CSV file containing sequences to be ordered for synthesis. If you input optimize_guides_output.csv, you will get optimize_guides_output_to_order.csv.

The first row of the CSV will contain the header. The second row will contain the tracrRNA sequences. The following rows will include your crRNA sequences.

The CSV output will contain the following.

  1. Guide name
  2. Target sequence
  3. Reverse complement of the target sequence
  4. Guide RNA sequence (can order as RNA)
  5. Guide RNA template with T7 transcription site (can order as DNA, along with T7 18mer TAATACGACTCACTATAG, and transcribe using T7 enzyme)
bash guidecsv_to_order.sh optimize_guides_output.csv
You can’t perform that action at this time.