valr
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rnabioco
Genome Interval Arithmetic in R
passes tests and checks but want to run through valgrind and ASAN/UBSAN before merging. closes #349
It would be nice to have some functions that pull data from indexed genomic data formats (`tabix`, `bam`, and `vcf`) into tidy tibbles. There are bioconductor approaches for data import,...
http://bioconductor.org/packages/release/bioc/html/regioneR.html and Bioinformatics publication therein. Add a mention in README.
from the [paper](http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002529): > The p-value and the direction of difference from the null hypothesis (that the positions of `Q` and `R` are independent) are obtained by permutation. Each permutation...
It's possible for the user to mistakenly pass a dataset twice to bed_intersect() when using the %>% operator. This happens when an intermediate function is called within the bed_intersect call....
Prepare for release: * [x] `git pull` * [ ] Check [current CRAN check results](https://cran.rstudio.org/web/checks/check_results_valr.html) * [ ] [Polish NEWS](https://style.tidyverse.org/news.html#news-release) * [ ] `urlchecker::url_check()` * [ ] `devtools::build_readme()` * [...
## Summary Investigated whether valr could benefit from direct C-level integration with bigWig/bigBed files via cpp11bigwig, to avoid inflating entire files to tibbles before intersection operations. ## Analysis ### What...