Package: tidygenomics 0.1.2
tidygenomics: Tidy Verbs for Dealing with Genomic Data Frames
Handle genomic data within data frames just as you would with 'GRanges'. This packages provides method to deal with genomic intervals the "tidy-way" which makes it simpler to integrate in the the general data munging process. The API is inspired by the popular 'bedtools' and the genome_join() method from the 'fuzzyjoin' package.
Authors:
tidygenomics_0.1.2.tar.gz
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tidygenomics.pdf |tidygenomics.html✨
tidygenomics/json (API)
NEWS
| # Install 'tidygenomics' in R: |
| install.packages('tidygenomics', repos = c('https://const-ae.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/const-ae/tidygenomics/issues
Last updated 4 years agofrom:23737e99f7. Checks:12 OK. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Mar 08 2025 |
| R-4.5-win-x86_64 | OK | Mar 08 2025 |
| R-4.5-mac-x86_64 | OK | Mar 08 2025 |
| R-4.5-mac-aarch64 | OK | Mar 08 2025 |
| R-4.5-linux-x86_64 | OK | Mar 08 2025 |
| R-4.4-win-x86_64 | OK | Mar 08 2025 |
| R-4.4-mac-x86_64 | OK | Mar 08 2025 |
| R-4.4-mac-aarch64 | OK | Mar 08 2025 |
| R-4.4-linux-x86_64 | OK | Mar 08 2025 |
| R-4.3-win-x86_64 | OK | Mar 08 2025 |
| R-4.3-mac-x86_64 | OK | Mar 08 2025 |
| R-4.3-mac-aarch64 | OK | Mar 08 2025 |
Exports:cluster_intervalgenome_anti_join_closestgenome_clustergenome_complementgenome_full_join_closestgenome_inner_join_closestgenome_intersectgenome_join_closestgenome_left_join_closestgenome_right_join_closestgenome_semi_join_closestgenome_subtract
Dependencies:BiocGenericsclicpp11dplyrfansifuzzyjoingenericsgeosphereglueIRangeslatticelifecyclemagrittrpillarpkgconfigpurrrR6RcpprlangS4Vectorsspstringdiststringistringrtibbletidyrtidyselectutf8vctrswithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Cluster ranges which are implemented as 2 equal-length numeric vectors. | cluster_interval |
| Intersect data frames based on chromosome, start and end. | genome_cluster |
| Calculates the complement to the intervals covered by the intervals in a data frame. It can optionally take a 'chromosome_size' data frame that contains 2 or 3 columns, the first the names of chromosome and in case there are 2 columns the size or first the start index and lastly the end index on the chromosome. | genome_complement |
| Intersect data frames based on chromosome, start and end. | genome_intersect |
| Join intervals on chromosomes in data frames, to the closest partner | genome_anti_join_closest genome_full_join_closest genome_inner_join_closest genome_join_closest genome_left_join_closest genome_right_join_closest genome_semi_join_closest |
| Subtract one data frame from another based on chromosome, start and end. | genome_subtract |
