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A statistical framework and computational procedure for identifying the sub-populations within a tumor, determining the mutation profiles of each subpopulation, and inferring the tumor's phylogenetic history. The input are variant allele frequencies (VAFs) of somatic single nucleotide alterations (SNAs) along with allele-specific coverage ratios between the tumor and matched normal sample for somatic copy number alterations (CNAs). These quantities can be directly taken from the output of existing software. Canopy provides a general mathematical framework for pooling data across samples and sites to infer the underlying parameters. For SNAs that fall within CNA regions, Canopy infers their temporal ordering and resolves their phase. When there are multiple evolutionary configurations consistent with the data, Canopy outputs all configurations along with their confidence assessment.

copied from cf-staging / r-canopy
Type Size Name Uploaded Downloads Labels
conda 961.4 kB | noarch/r-canopy-1.3.0-r44hc72bb7e_4.conda  1 year and 1 month ago 983 main
conda 960.3 kB | noarch/r-canopy-1.3.0-r43hc72bb7e_4.conda  1 year and 1 month ago 940 main
conda 960.6 kB | noarch/r-canopy-1.3.0-r43hc72bb7e_3.conda  2 years and 2 months ago 1372 main
conda 960.6 kB | noarch/r-canopy-1.3.0-r42hc72bb7e_3.conda  2 years and 2 months ago 1373 main
conda 981.5 kB | noarch/r-canopy-1.3.0-r42hc72bb7e_2.tar.bz2  2 years and 10 months ago 1768 main
conda 987.2 kB | noarch/r-canopy-1.3.0-r41hc72bb7e_2.tar.bz2  2 years and 10 months ago 1738 main
conda 983.5 kB | noarch/r-canopy-1.3.0-r40hc72bb7e_1.tar.bz2  4 years and 3 months ago 2393 main
conda 979.0 kB | noarch/r-canopy-1.3.0-r41hc72bb7e_1.tar.bz2  4 years and 3 months ago 2410 main
conda 984.5 kB | noarch/r-canopy-1.3.0-r36h6115d3f_1.tar.bz2  5 years and 3 months ago 3303 main
conda 983.5 kB | noarch/r-canopy-1.3.0-r40h6115d3f_1.tar.bz2  5 years and 3 months ago 3240 main
conda 977.5 kB | noarch/r-canopy-1.3.0-r35h6115d3f_0.tar.bz2  5 years and 10 months ago 4009 main cf202003
conda 984.7 kB | noarch/r-canopy-1.3.0-r36h6115d3f_0.tar.bz2  5 years and 10 months ago 3926 main cf202003

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