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. Author manuscript; available in PMC: 2017 Oct 1.
Published in final edited form as: Nat Protoc. 2017 Mar 23;12(4):828–863. doi: 10.1038/nprot.2017.016

Flag Description Default

-o Output csv file with names for target genes, corresponding spacer sequences, and oligo library sequences in columns from left to right oligos.csv
-l Annotated library csv file with names in the first column and corresponding spacer sequences in the second column annotated_library.csv
-g Target genes csv file with names of target genes target_genes.csv
-gecko or -sam Specify the type of library and add the respective flanking sequences to the spacers for the oligo library synthesis Neither