Bambino

Application data
Biological application domain(s)	SNP detection, Genetic variation
Maintained?	Maybe
Input format(s)	SAM, BAM
Programming language(s)	Java

Summary: Variant detector and graphical alignment viewer for SAM/BAM format data.

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Description

Bambino is a variant detector and graphical alignment viewer for next-generation sequencing data in the SAM/BAM format, which is capable of pooling data from multiple source files. The variant detector takes advantage of SAM-specific annotations, and produces detailed output suitable for genotyping and identification of somatic mutations. The assembly viewer can display reads in the context of a either a user-provided or automatically-generated reference sequence, retrieve genome annotation features from a UCSC genome annotation database, display histograms of non-reference allele frequencies, and predict protein coding changes caused by SNPs.

Links

• Bambino Homepage [ edit link ]

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References

1. . 2011. Bioinformatics

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