GuideScan specifications

Information


Unique identifier OMICS_16793
Name GuideScan
Interface Web user interface
Restrictions to use None
Input data The genomic coordinates, the user’s parameters.
Input format BED, GFF/GTF, TXT
Output data A pre-defined number of gRNAs or gRNA pairs for each genomic coordinate.
Programming languages Python
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Andrea Ventura <>

Information


Unique identifier OMICS_16793
Name GuideScan
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data The genomic coordinates, the user’s parameters.
Input format BED, GFF/GTF, TXT
Output data A pre-defined number of gRNAs or gRNA pairs for each genomic coordinate.
Operating system Unix/Linux, Mac OS
Programming languages Python
Computer skills Advanced
Stability Stable
Requirements SAMtools, coreutils: specifically shuf, rename, easy_install, biopython, pysam, pyfaidx, bx-python
Maintained Yes

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Versioning


Add your version

Documentation


Maintainer


  • person_outline Andrea Ventura <>

Publication for GuideScan

GuideScan institution(s)
Computational Biology Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA; Cancer Biology and Genetics Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA; Weill Cornell Graduate School of Medical Sciences of Cornell University, New York, NY, USA
GuideScan funding source(s)
This work was supported in part by NIH: grants P30-CA008748 (MSK Core), U01-HG007033, U01-HG007893, and by grants from the Geoffrey Beene Cancer Research Foundation, the Uniting Against Lung Cancer Foundation, the Cycle for Survival Foundation, the Pershing Square Sohn Cancer Research Alliance, and the Lung Cancer Research Foundation.

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