scoper
Spectral Clustering-Based Method for Identifying B Cell Clones
Description
Provides a computational framework for identification of B cell clones from Adaptive Immune Receptor Repertoire sequencing (AIRR-Seq) data. Three main functions are included (identicalClones, hierarchicalClones, and spectralClones) that perform clustering among sequences of BCRs/IGs (B cell receptors/immunoglobulins) which share the same V gene, J gene and junction length. Nouri N and Kleinstein SH (2018) <doi: 10.1093/bioinformatics/bty235>. Nouri N and Kleinstein SH (2019) <doi: 10.1101/788620>. Gupta NT, et al. (2017) <doi: 10.4049/jimmunol.1601850>.
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CRAN Check Status
Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | ERROR |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (1 non-OK)
re-building of vignette outputs
Error(s) in re-building vignettes: --- re-building 'Scoper-Vignette.Rmd' using rmarkdown ! Package pdftex.def Error: File `3078b6a2255b7748c529caeac446d4c0b2b9dc37.pdf' not found: using draft setting. Error: processing vignette 'Scoper-Vignette.Rmd' failed with diagnostics: LaTeX failed to compile D:/RCompile/CRANpkg/local/4.4/scoper.Rcheck/vign_test/scoper/vignettes/Scoper-Vignette.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See Scoper-Vignette.log for more info. --- failed re-building 'Scoper-Vignette.Rmd' SUMMARY: processing the following file failed: 'Scoper-Vignette.Rmd' Error: Vignette re-building failed. Execution halted
Check History
ERROR 13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Mar 30, 2026
re-building of vignette outputs
Error(s) in re-building vignettes: --- re-building 'Scoper-Vignette.Rmd' using rmarkdown ! Package pdftex.def Error: File `3078b6a2255b7748c529caeac446d4c0b2b9dc37.pdf' not found: using draft setting. Error: processing vignette 'Scoper-Vignette.Rmd ...[truncated]... tinytex/r/#debugging for debugging tips. See Scoper-Vignette.log for more info. --- failed re-building 'Scoper-Vignette.Rmd' SUMMARY: processing the following file failed: 'Scoper-Vignette.Rmd' Error: Vignette re-building failed. Execution halted