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Short indel Prediction by Large deviation Inference and Nonlinear True frequency Estimation by Recursion SPLINTER

Detects and quantifies short indels and substitutions in large pools. SPLINTER allows accurate detection and quantification of short insertions, deletions, and substitutions by integrating information from the synthetic DNA library to tune SPLINTER and quantify specificity and sensitivity for every experiment in order to accurately detect and quantify indels and substitutions.

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SPLINTER classification

SPLINTER specifications

Software type:
Package/Module
Restrictions to use:
Academic or non-commercial use
Operating system:
Unix/Linux
Computer skills:
Advanced
Maintained:
Yes
Interface:
Command line interface
Input data:
Aligned file and error model
Programming languages:
C, C++
Stability:
Stable

SPLINTER distribution

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Publications

Institution(s)

Center for Genome Sciences and Systems Biology Department of Genetics Washington University in St Louis School of Medicine, St Louis, MO, USA

Funding source(s)

This work was partly supported by the Children's Discovery Institute grant MC-II-2006-1, the NIH Epigenetics Roadmap grant (1R01DA025744-01 and 3R01DA025744-02S1), the Saigh Foundation, and Hope Street Kids and Alex's Lemonade Stand “A” Award support.

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