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snakemake-crispr-guides
A Snakemake workflow for the design of small guide RNAs (sgRNAs) for CRISPR applications.
MIT License
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Add module to generate BSgenome --> enables bowtie as default off-target search
#4
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m-jahn
closed
1 year ago
m-jahn
commented
1 year ago
right now biostrings is used to search off-targets as it has no dependencies
bowtie requires a BSgenome object
can be made with
BSgenome
R package
m-jahn
commented
1 year ago
after experimenting with
BSgenome
package, it turned out that making a BSgenome object on the fly is not trivial in snakemake
problems with path resolution, hard to debug
will postpone until a fix or simple solution is available
BSgenome
R package