miRSM 3.15 to 3.23
BioconductorRecord of Bioconductor 3.15Record of Bioconductor 3.23Both records side by side
- 3.15 and 3.23
- between them
- other releases
Bioconductor counts distinct IP addresses month by month, and those months are not in this copy, so the spans carry no downloads. Months are never added up for a release.
- Time between
- 1,463 days7 releases between
- Advisories, method
Method
Security advisories
Advisories come from the R Consortium advisory database, a community record of security problems in R packages, as OSV publishes it.
- The copy
- The record is read once a day. The data is published under the Apache License 2.0 and is credited on the advisories list.
- Box under the name
- Under the package's name, a box names any advisory that affects the current release, with its fix or that there is none.
- Ranges
- Advisories state ranges, such as from 0.9.12 up to but not including 1.8.8. Each range is checked against every version CRAN has published, using the version rules R itself uses, so a release that came out after the advisory was written is still caught by its range.
- Not the package
- The rating is for the library flaw itself, not for how exposed the R package is, and it is never added up into a figure for the package.
- Not coveredfor Bioconductor
- Exports, method
- 3 addednone removed
- Dependencies
- 16 changes7 added, 8 removed, 1 bound7 added, 8 removed
- Licence
- SameGPL-3
- Maintainer
- –not kept for one release
Downloads while newest
Method, downloads Method Download figures count requests logged by each distribution channel. They are not counts of installs or of users, because each channel publishes its own totals and this site reads them.Downloads
| Release | Days newest |
|---|---|
| Bioconductor 3.23 29 Apr to 29 Oct 2026, still the newest | 184 |
| Bioconductor 3.15 27 Apr to 1 Nov 2022 | 189 |
Bioconductor counts distinct IP addresses month by month, and those months are not in this copy, so no release has figures here. Months are never added up into a total for a release.
Dependencies
Method, dependencies Method Dependent packages are other packages that list this one under Reverse dependencies
Depends, Imports or LinkingTo in their DESCRIPTION file. Those fields list the packages a package needs to install, so dependents break if this one is archived or broken.Suggests install and run without it, and use it for tests, examples or an optional feature. They are counted as Suggested by, never among the dependents, and a package that also lists it under one of the three fields is a dependent and is not counted again.
- added
- removed
- bound or field changed
| Package | |
|---|---|
| changed | R |
| removed | BiBitR |
| removed | biclust |
| added | clusterProfiler |
| added | DOSE |
| added | grid |
| removed | iBBiG |
| removed | linkcomm |
| added | methods |
| removed | miRspongeR |
| added | RColorBrewer |
| added | ReactomePA |
| added | rJava |
| removed | rqubic |
| removed | s4vd |
| removed | subspace |
Bioconductor keeps the names of the direct dependencies only, without their fields or version bounds.
Side by side
| Measure | 3.15 | 3.23 | Change |
|---|---|---|---|
| R | >= 3.5.0 | >= 4.4.0 | changed |
| Direct | 32 packages | 31 packages | +7 −8 |
Exports
added Added (3)
diff_modulemiRSM_SSmodule_group_sim
Code
Method, code Method Code metrics come from reading the released source of each package version. The package is never installed, loaded or run.Code metrics
README, vignettes, a NEWS file and the shares read from its help pages. Files kept only in the repository, such as a pkgdown configuration or CI files, are read by the repository scan instead.
| Measure | 3.15 | 3.23 | Change |
|---|---|---|---|
| Lines of R code | 2,065 | 4,816 | +2,751 up |
| Lines of compiled code | 34 | 3,467 | +3,433 up |
| Files | 34 | 61 | +27 up |
| Public exports | 17 | 20 | +3 up |
| Internal functions | 14 | 34 | +20 up |
| Mean complexity | 5.1 | 8.3 | +3.2 up |
| Highest complexity | 25 | 39 | +14 up |
| Source, unpacked | 768 KB | 5.9 MB | +5.2 MB up |
Side by side
| Measure | 3.15 | 3.23 | Change |
|---|---|---|---|
| Lines of R code | 2,065 | 4,816 | +2,751 |
| Lines of compiled code | 34 | 3,467 | +3,433 |
| Files | 34 | 61 | +27 |
| Public exports | 17 | 20 | +3 |
| Internal functions | 14 | 34 | +20 |
| Mean complexity | 5.1 | 8.3 | +3.2 |
| Highest complexity | 25 | 39 | +14 |
| Source, unpacked | 768 KB | 5.9 MB | +5.2 MB |
| Analysed with | rpkg-analyzer 0.5.0 | rpkg-analyzer 0.5.0 |
Tests
Method, tests Method Test coverage is measured by downloading each CRAN package's current source file, installing its dependencies, building it and running its tests under covr.Test coverage
| Measure | 3.15 | 3.23 | Change |
|---|---|---|---|
| Test lines per line of code | 0.01 | 0.00 | −0.01 down |
| Exports named in tests | 11.8% | 10.0% | −1.8 points down |
2 other figures of the tests are the same in both.
Test coverage is not measured for Bioconductor packages.
Side by side
| Measure | 3.15 | 3.23 | Change |
|---|---|---|---|
| Test cases | 1 | 1 | |
| Lines of tests | 16 | 16 | |
| Test lines per line of code | 0.01 | 0.00 | −0.01 |
| Exports named in tests | 11.8% | 10.0% | −1.8 points |
Documentation
| Measure | 3.15 | 3.23 | Change |
|---|---|---|---|
| Lines of documentation | 1,205 | 1,306 | +101 up |
| Lines of guides | 302 | 2,063 | +1,761 up |
3 other figures of the documentation are the same in both.
Side by side
| Measure | 3.15 | 3.23 | Change |
|---|---|---|---|
| Exports documented | 100.0% | 100.0% | |
| Arguments documented | 100.0% | 100.0% | |
| Return value documented | 100.0% | 100.0% | |
| Lines of documentation | 1,205 | 1,306 | +101 |
| Lines of guides | 302 | 2,063 | +1,761 |
Files changed
- Files changed
- 61over 8 releases
- Lines added
- 15,010
- Lines deleted
- 2,806
Most changed files (12 of 61)
| File | Lines added | Lines deleted |
|---|---|---|
R/miRSM.R | 4,160 | 1,422 |
inst/extdata/Groundtruth_high.csv | 3,729 | 0 |
vignettes/miRSM.html | 1,611 | 0 |
src/OCG_algorithm.c | 1,058 | 0 |
src/linkcomm_hclust.cpp | 574 | 0 |
src/linkcomm_edgesims.cpp | 510 | 0 |
src/linkcomm_edgesims_all.cpp | 459 | 0 |
man/miRSM.Rd | 154 | 134 |
man/module_biclust.Rd | 118 | 158 |
src/linkcomm_linkdensities.cpp | 245 | 0 |
src/linkcomm_functions.cpp | 243 | 0 |
man/module_clust.Rd | 106 | 106 |
Each release is counted against the release before it, so a line changed twice counts twice.
Unchanged and not compared
Licence and the people named are the same in both releases.
Build results, dependents and the repository describe the package as it is now, so they are on the package page.