FlashFry

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Hi there, I'm wondering if it might be possible to add _Staphylococcus aureus_ Cas9 (SaCas9) to FlashFry? It has a canonical NNGRRT PAM motif, with the NNGRRN motif showing quite...

photocyte

Hi - we have been working on designing gRNAs with alternate PAM sites. One Cas enzyme we have been testing is the SpG Cas enzyme. This is an engineered version...

sri-jumpcode

support for other PAM sequences

7

Is it possible to add functionality to build the off target database using custom PAM sequences?

gnapham

Run with multiple threads/cores?

5

Thank you very much for the creation of this program, works great! I am starting to assemble some fairly large regions to run the discover module, and I was wondering...

nkuperwasser

Hi @aaronmck , What `DoenchCFD_specificityscore` threshold do you recommend using to select for `good` guides? Thanks a lot. Best, Huanle

Huanle

Filtering gRNAs for GC% and homopolymers

4

Hi Aaron: Been using FlashFry for quite a few years now. In my current project, I am designing millions of gRNAs and before we synthesize them, we filter the gRNAs...

sri-jumpcode

Best Scoring Matrix for CPF1

4

First, I would like to thank you for this amazing effort. This is by far the most convenient and complete command-line tool for Guide RNA design. I am not sure...

melkerdawy

Support for Cpf1 and CasΦ

1

Amazing tool, I really like it since it is fast enough especially when the genome is very large. I am super interested in using this tool to figure out the...

hcph

TODO: https://github.com/MicrosoftResearch/Azimuth

aaronmck

Hi, Thank you for your continuous efforts in maintaining and improving this software. It has been a valuable tool for our research. Currently, the software supports the default Cpf1 PAM...

2021JohnSheng