Metadata-Version: 2.1
Name: sgRNAble
Version: 1.0.11
Summary: CRISPR-Cas9 single guide RNA generation tool
Home-page: https://github.com/hallamlab/sgRNAble
Author: Avery Noonan, Siddarth Raghuvanshi, Ahmed Abdelmoneim
Author-email: sidr97@gmail.com
License: UNKNOWN
Platform: UNKNOWN
Classifier: Programming Language :: Python :: 3
Classifier: Operating System :: OS Independent
Requires-Python: ==3.7.*
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: biopython
Requires-Dist: matplotlib
Requires-Dist: numba
Requires-Dist: numpy (==1.16.6)
Requires-Dist: pandas
Requires-Dist: psutil
Requires-Dist: scikit-learn (==0.20.4)
Requires-Dist: scipy
Requires-Dist: tqdm

# sgRNAble

__sgRNAble__ is a tool for high-throughput design of sgRNA libraries targeting selected genes or whole genomes, while considering both on-target binding potential and off-target effects of a given sgRNA in a user-defined genome.

## Basic Usage

```
 sgrnable -t TARGET_SEQUENCE.fasta -g GENOME_SEQUENCE.fasta
          [GENOME_SEQUENCE.fasta ...] [-a AZIMUTH_CUTOFF]
          [-c COPY_NUMBER [COPY_NUMBER ...]]
          [-o OUTPUT_DIR] [-p PURPOSE]
          [-th NUM_THREADS] [-m MAX_MEMORY] [-v]
```

## Documentation

All documentation for the current release is accessible through the [sgRNAble wiki](https://github.com/hallamlab/sgRNAble/wiki).

## Authors
* [Siddarth Raghuvanshi](https://github.com/Siddarth-Raghuvanshi)
* [Ahmed Abdelmoneim](https://github.com/AhmedAbdelmoneim)
* [Avery Noonan](https://github.com/Noonanav)

## Contact

Need something? Please contact Professor Steven Hallam and Avery Noonan at: shallam@mail.ubc.ca and avery.noonan@ubc.ca

## References

Farasat, I., & Salis, H. M. (2016). A Biophysical Model of CRISPR/Cas9 Activity for Rational Design of Genome Editing and Gene Regulation. _PLOS Computational Biology_, __12__(1), e1004724. doi:10.1371/journal.pcbi.1004724

Doench, J. G., Fusi, N., Sullender, M., Hegde, M., Vaimberg, E. W., Donovan, K. F., . . . Root, D. E. (2016). Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9. _Nature biotechnology_, __34__(184). doi:10.1038/nbt.3437


