Package: CLONETv2 2.2.1
Yari Ciani
CLONETv2: Clonality Estimates in Tumor
Analyze data from next-generation sequencing experiments on genomic samples. 'CLONETv2' offers a set of functions to compute allele specific copy number and clonality from segmented data and SNPs position pileup. The package has also calculated the clonality of single nucleotide variants given read counts at mutated positions. The package has been developed at the laboratory of Computational and Functional Oncology, Department of CIBIO, University of Trento (Italy), under the supervision of prof Francesca Demichelis. References: Prandi et al. (2014) <doi:10.1186/s13059-014-0439-6>; Carreira et al. (2014) <doi:10.1126/scitranslmed.3009448>; Romanel et al. (2015) <doi:10.1126/scitranslmed.aac9511>.
Authors:
CLONETv2_2.2.1.tar.gz
CLONETv2_2.2.1.tar.gz(r-4.5-noble)CLONETv2_2.2.1.tar.gz(r-4.4-noble)
CLONETv2_2.2.1.tgz(r-4.4-emscripten)CLONETv2_2.2.1.tgz(r-4.3-emscripten)
CLONETv2.pdf |CLONETv2.html✨
CLONETv2/json (API)
NEWS
| # Install 'CLONETv2' in R: |
| install.packages('CLONETv2', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 3 years agofrom:c590845b42. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 31 2024 |
| R-4.5-linux | OK | Oct 31 2024 |
Exports:adm_table_toyallele_specific_cna_table_toybt_toycheck_ploidy_and_admixturecompute_allele_specific_scna_tablecompute_beta_tablecompute_dna_admixturecompute_ploidycompute_scna_clonality_tablecompute_snv_clonalityerror_tablepileup_normal_toypileup_tumor_toypl_table_toyscna_clonality_table_toyseg_tb_toysnv_clonality_table_toysnv_reads_toy
Dependencies:arulesclicolorspacedbscanfansifarvergenericsggplot2ggrepelgluegtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigR6RColorBrewerRcpprlangscalessetstibbleutf8vctrsviridisLitewithr
