MethScope
Ultra-Fast Analysis of Sparse DNA Methylome via Recurrent Pattern Encoding
Description
Methods for analyzing DNA methylation data via Most Recurrent Methylation Patterns (MRMPs). Supports cell-type annotation, spatial deconvolution, unsupervised clustering, and cancer cell-of-origin inference. Includes C-backed summaries for YAME “.cg/.cm” files (overlap counts, log2 odds ratios, beta/depth aggregation), an XGBoost classifier, NNLS deconvolution, and plotting utilities. Scales to large spatial and single-cell methylomes and is robust to extreme sparsity.
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CRAN Check Status
Show all 13 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-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| 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 History
OK 13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Jun 9, 2026
ERROR 12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Jun 8, 2026
package dependencies
Package required but not available: ‘caret’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
OK 13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE May 2, 2026
ERROR 11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Apr 25, 2026
package dependencies
Package required but not available: ‘caret’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Apr 10, 2026
installed package size
installed size is 8.2Mb
sub-directories of 1Mb or more:
R 2.1Mb
extdata 4.5Mb
help 1.2Mb
installed package size
installed size is 8.3Mb
sub-directories of 1Mb or more:
R 2.1Mb
extdata 4.5Mb
help 1.2Mb
installed package size
installed size is 7.1Mb
sub-directories of 1Mb or more:
R 1.1Mb
extdata 4.5Mb
help 1.2Mb
ERROR 10 OK · 3 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Apr 9, 2026
package dependencies
Package required but not available: ‘uwot’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
installed package size
installed size is 8.2Mb
sub-directories of 1Mb or more:
R 2.1Mb
extdata 4.5Mb
help 1.2Mb
installed package size
installed size is 8.3Mb
sub-directories of 1Mb or more:
R 2.1Mb
extdata 4.5Mb
help 1.2Mb
installed package size
installed size is 7.1Mb
sub-directories of 1Mb or more:
R 1.1Mb
extdata 4.5Mb
help 1.2Mb
NOTE 11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
installed package size
installed size is 8.2Mb
sub-directories of 1Mb or more:
R 2.1Mb
extdata 4.5Mb
help 1.2Mb
installed package size
installed size is 8.3Mb
sub-directories of 1Mb or more:
R 2.1Mb
extdata 4.5Mb
help 1.2Mb
installed package size
installed size is 7.1Mb
sub-directories of 1Mb or more:
R 1.1Mb
extdata 4.5Mb
help 1.2Mb