FaSD-somatic statistics

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FaSD-somatic specifications

Information


Unique identifier OMICS_04051
Name FaSD-somatic
Alternative name Fast somatic SNP Detector
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data An indexed file with appropriate reference information stored in header and a file generated by view and pileup command in SAMtools before v0.1.16 or a pileup file generated by mpileup command in SAMtools.
Input format BAM
Operating system Unix/Linux
Programming languages C, C++
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for FaSD-somatic

FaSD-somatic in publication

PMCID: 5852328
PMID: 29552334
DOI: 10.1016/j.csbj.2018.01.003

[…] data from the same patient are available, radia will include the gene expression data in an integrated analysis to further reduce false positives., joint genotype analysis, adopted by somaticsniper, fasd-somatic, samtools, jointsnvmix2, virmid, snvsniffer, seurat, and cavemanĀ , , , , , , , , assumes diploidy in both tumor and normal and evaluates the likelihood of the joint genotypes. variant […]


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FaSD-somatic institution(s)
Department of Biochemistry, LKS Faculty of Medicine, Hong Kong; Shenzhen Institute of Research and Innovation, The University of Hong Kong, Shenzhen; Guangdong, HKU-BGI Bioinformatics Algorithms and Core Technology Research Laboratory, Department of Computer Science, Department of Pathology and Centre for Genomic Sciences, LKS Faculty of Medicine, The University of Hong Kong, Hong Kong, China
FaSD-somatic funding source(s)
Supported by Research Grants Council, Hong Kong SAR, China (grant number 781511M); National Natural Science Foundation of China, China (grant number 91229105); Innovation and Technology Fund, Hong Kong SAR, China (grant number GHP/011/012).

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