Package: MitoHEAR 0.1.0
MitoHEAR: Quantification of Mitochondrial DNA Heteroplasmy
R package that allows the estimation and downstream statistical analysis of the mitochondrial DNA Heteroplasmy calculated from single-cell datasets.
Authors:
MitoHEAR_0.1.0.tar.gz
MitoHEAR_0.1.0.zip(r-4.5)MitoHEAR_0.1.0.zip(r-4.4)MitoHEAR_0.1.0.zip(r-4.3)
MitoHEAR_0.1.0.tgz(r-4.4-any)MitoHEAR_0.1.0.tgz(r-4.3-any)
MitoHEAR_0.1.0.tar.gz(r-4.5-noble)MitoHEAR_0.1.0.tar.gz(r-4.4-noble)
MitoHEAR_0.1.0.tgz(r-4.4-emscripten)MitoHEAR_0.1.0.tgz(r-4.3-emscripten)
MitoHEAR.pdf |MitoHEAR.html✨
MitoHEAR/json (API)
| # Install 'MitoHEAR' in R: |
| install.packages('MitoHEAR', repos = c('https://gabrielelubatti.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/scialdonelab/mitohear/issues
Last updated 3 years agofrom:3d655c46e4. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 05 2024 |
| R-4.5-win | NOTE | Nov 05 2024 |
| R-4.5-linux | NOTE | Nov 05 2024 |
| R-4.4-win | NOTE | Nov 05 2024 |
| R-4.4-mac | NOTE | Nov 05 2024 |
| R-4.3-win | NOTE | Nov 05 2024 |
| R-4.3-mac | NOTE | Oct 06 2024 |
Exports:choose_features_clusteringclustering_angular_distancedetect_insertiondpt_testfilter_basesget_distributionget_heteroplasmyget_raw_counts_alleleget_wilcox_testplot_allele_frequencyplot_base_coverageplot_batchplot_cells_coverageplot_conditionplot_coordinate_clusterplot_coordinate_heteroplasmyplot_correlation_basesplot_distance_matrixplot_distributionplot_dptplot_genome_coverageplot_heatmapplot_heteroplasmyplot_heteroplasmy_variabilityplot_spider_chartvi_comparison
Dependencies:askpassBHBiocGenericsBiocParallelBiostringsbitopscirclizecliclueclustercodetoolscolorspaceComplexHeatmapcpp11crayoncurldata.tabledigestdoParalleldynamicTreeCutfansifarverforeachformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesGetoptLongggplot2GlobalOptionsgluegridExtragtablehttrIRangesisobanditeratorsjsonlitelabelinglambda.rlatticelifecyclelpSolvemagrittrMASSMatrixmatrixStatsmcclustmgcvmimemunsellnlmeopensslpillarpkgconfigplyrpngR6RColorBrewerRcppRcppArmadillordistreshape2RhtslibrjsonrlangrlistRsamtoolsS4VectorsscalesshapesnowstringistringrsystibbleUCSC.utilsutf8vctrsviridisLitewithrXMLXVectoryamlzlibbioc
cell_competition_bulk_data_mt_example_notebook
Rendered fromcell_competition_bulk_data_mt_example_notebook.Rmdusingknitr::rmarkdownon Nov 05 2024.Last update: 2022-02-14
Started: 2022-02-14
cell_competition_mt_example_notebook
Rendered fromcell_competition_mt_example_notebook.Rmdusingknitr::rmarkdownon Nov 05 2024.Last update: 2022-04-21
Started: 2022-02-07
lineage_tracing_example_notebook
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Started: 2022-02-14
Ludwig_et_al_example_notebook
Rendered fromLudwig_et_al_example_notebook.Rmdusingknitr::rmarkdownon Nov 05 2024.Last update: 2022-02-21
Started: 2022-02-14
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| choose_features_clustering | choose_features_clustering |
| clustering_angular_distance | clustering_angular_distance |
| detect_insertion | detect_insertion |
| dpt_test | dpt_test |
| filter_bases | filter_bases |
| get_distribution | get_distribution |
| get_heteroplasmy | get_heteroplasmy |
| get_raw_counts_allele | get_raw_counts_allele |
| get_wilcox_test | get_wilcox_test |
| plot_allele_frequency | plot_allele_frequency |
| plot_base_coverage | plot_base_coverage |
| plot_batch | plot_batch |
| plot_cells_coverage | plot_cells_coverage |
| plot_condition | plot_condition |
| plot_coordinate_cluster | plot_coordinate_cluster |
| plot_coordinate_heteroplasmy | plot_coordinate_heteroplasmy |
| plot_correlation_bases | plot_correlation_bases |
| plot_distance_matrix | plot_distance_matrix |
| plot_distribution | plot_distribution |
| plot_dpt | plot_dpt |
| plot_genome_coverage | plot_genome_coverage |
| plot_heatmap | plot_heatmap |
| plot_heteroplasmy | plot_heteroplasmy |
| plot_heteroplasmy_variability | plot_heteroplasmy_variability |
| plot_spider_chart | plot_spider_chart |
| vi_comparison | vi_comparison |
