GitHub / simonlabcode/bakR / commits
| SHA | Message | Author | Date | Stats |
|---|---|---|---|---|
| 77950c10 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
over 1 year ago | |
| c248b3a6 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
almost 2 years ago | |
| d1d4ab3e | merge Merge pull request #6 from simonlabcode/develop |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 2 years ago | |
| 1bed6477 | Add new citation | isaacvock <i****k@g****m> | about 2 years ago | |
| e500e2f7 | merge Merge branch 'develop' of https://github.com/simonlabcode/bakR into develop | isaacvock <i****k@g****m> | about 2 years ago | |
| 416dc921 | Corrected dropout vignette | isaacvock <i****k@g****m> | about 2 years ago | |
| cbdc773a | Submitted to CRAN | isaacvock <i****k@g****m> | over 2 years ago | |
| cbf5c43a | Fix documentation CRAN NOTE | isaacvock <i****k@g****m> | over 2 years ago | |
| ce993399 | Fixed DESeq2 link | isaacvock <i****k@g****m> | over 2 years ago | |
| 473ba7da | Update documentation | isaacvock <i****k@g****m> | over 2 years ago | |
| 18cd6e30 | Updated CRAN comments | isaacvock <i****k@g****m> | over 2 years ago | |
| f0fbce69 | Updated NEWS | isaacvock <i****k@g****m> | over 2 years ago | |
| f069a5dc | Increment version number to 1.0.1 | isaacvock <i****k@g****m> | over 2 years ago | |
| f055ba7d | Fix markdown | isaacvock <i****k@g****m> | over 2 years ago | |
| 7ba9f8b9 | merge Merge pull request #3 from andrjohns/array-syntax |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
almost 3 years ago | |
| 479f7f5e | array-syntax | Andrew Johnson <a****n@a****m> | almost 3 years ago | |
| f346946c | Workaround the Hmisc bug that crops up if number of features is huge | isaacvock <i****k@g****m> | about 3 years ago | |
| c056ed41 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| fa5d4f60 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 4ee118dd | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 9526d760 | Tagged CRAN release | isaacvock <i****k@g****m> | about 3 years ago | |
| 1ad7ca1d | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 21e424eb | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| dad5f4ca | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| a44367b7 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| b0ed3516 | Updated CRAN comments | isaacvock <i****k@g****m> | about 3 years ago | |
| a4ef3e7b | Got rid of non-portable flags for CRAN | isaacvock <i****k@g****m> | about 3 years ago | |
| 8178dbaf | Fixed URLs in vignettes | isaacvock <i****k@g****m> | about 3 years ago | |
| b9b7b0b5 | Removed unused appendix from vignette | isaacvock <i****k@g****m> | about 3 years ago | |
| 4dff80a2 | Corrected vignette equation formatting | isaacvock <i****k@g****m> | about 3 years ago | |
| 474f5b34 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| c88b2acd | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 30e018de | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 1a4dadfb | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 76535a08 | Update information about v1.0.0 | isaacvock <i****k@g****m> | about 3 years ago | |
| a3ad59db | Increment version number to 1.0.0 | isaacvock <i****k@g****m> | about 3 years ago | |
| f6e3e743 | merge Merge branch 'v0.5.0' | isaacvock <i****k@g****m> | about 3 years ago | |
| 9ddd0383 | Edited intro vignette | isaacvock <i****k@g****m> | about 3 years ago | |
| fedb1b64 | Fixed new MA plot bug | isaacvock <i****k@g****m> | about 3 years ago | |
| 58aa76bd | Improved DissectMechanism messaging | isaacvock <i****k@g****m> | about 3 years ago | |
| 44490fb7 | Fixed check bug | isaacvock <i****k@g****m> | about 3 years ago | |
| 76183478 | Added basic checks | isaacvock <i****k@g****m> | about 3 years ago | |
| 57eb3133 | Fixed CorrectDropout bakRFnFit uncertainty calculation | isaacvock <i****k@g****m> | about 3 years ago | |
| 7c580d77 | Added checks to plotVolcano | isaacvock <i****k@g****m> | about 3 years ago | |
| b3a4b383 | Optimized DissectMechanism and tweaked dropout correction | isaacvock <i****k@g****m> | about 3 years ago | |
| b16d4548 | Fixed DissectMechanisms bugs | isaacvock <i****k@g****m> | about 3 years ago | |
| e56b87f9 | Fixed remaining devtools::check() errors | isaacvock <i****k@g****m> | about 3 years ago | |
| bead40d0 | Fixed vignette bug | isaacvock <i****k@g****m> | about 3 years ago | |
| 4790952f | Fixed examples bug | isaacvock <i****k@g****m> | about 3 years ago | |
| 8f33a32c | Added old deg vs. synth metric to DissectMechanism output | isaacvock <i****k@g****m> | about 3 years ago | |
| b750fece | Edited vignettes | isaacvock <i****k@g****m> | about 3 years ago | |
| 0138ecf2 | Fixed bugs in FnPCA2 | isaacvock <i****k@g****m> | about 3 years ago | |
| 6412d26f | Finished new vignettes and fixed bug in FnPCA by creating new FnPCA2 | isaacvock <i****k@g****m> | about 3 years ago | |
| fe2cfbfd | Optimized DissectMechanism | isaacvock <i****k@g****m> | about 3 years ago | |
| e1f23dfa | More vignette work and edited DissectMechanism output accordingly | isaacvock <i****k@g****m> | about 3 years ago | |
| 065fe12d | More vignette work and changed named of NSSHeat2 to DissectMechanism | isaacvock <i****k@g****m> | about 3 years ago | |
| 5513c866 | Finished draft of NSS vignette | isaacvock <i****k@g****m> | about 3 years ago | |
| b8ee8cab | More vignette work | isaacvock <i****k@g****m> | about 3 years ago | |
| 6fef05cd | Updated vignette names and ordering on website | isaacvock <i****k@g****m> | about 3 years ago | |
| 2873d114 | Edited s4U format in vignette and finished draft of troubleshooting vignette | isaacvock <i****k@g****m> | about 3 years ago | |
| 11d72d26 | Reformatted message printing | isaacvock <i****k@g****m> | about 3 years ago | |
| 6bc564a4 | Reformatted message printing in fast_analysis | isaacvock <i****k@g****m> | about 3 years ago | |
| cac33e81 | Reformatted warning messages in QC_checks | isaacvock <i****k@g****m> | about 3 years ago | |
| 56fadd32 | Started writing troubleshooting vignette and updated suggested packages accor... | isaacvock <i****k@g****m> | about 3 years ago | |
| c1099c1c | Updated documentation and added new vignettes | isaacvock <i****k@g****m> | about 3 years ago | |
| be851bfa | Wrote first draft of bakRFn quickstart vignette | isaacvock <i****k@g****m> | about 3 years ago | |
| 2cddb504 | Added example GRAND-SLAM data | isaacvock <i****k@g****m> | about 3 years ago | |
| e5d22fd2 | Added input checks to GSprocessing | isaacvock <i****k@g****m> | about 3 years ago | |
| dccc275d | Updated documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| 7cbba33e | Implemented GS output processing and added necessary dependency | isaacvock <i****k@g****m> | about 3 years ago | |
| 66502765 | Finished draft of quickstart vignette | isaacvock <i****k@g****m> | about 3 years ago | |
| 7bfee986 | Fixed bug in p value handling | isaacvock <i****k@g****m> | about 3 years ago | |
| ff1adb50 | Added fn data frame example and started quickstart vignette | isaacvock <i****k@g****m> | about 3 years ago | |
| 7f2d68d0 | Updated TL_stan documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| 4a053241 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 912530b8 | Better handling of p value precision complications | isaacvock <i****k@g****m> | about 3 years ago | |
| d5a4f5c1 | Added better mechanism p value precision handling | isaacvock <i****k@g****m> | about 3 years ago | |
| d5282c90 | Updated NSS documentation and cleaned up implementation | isaacvock <i****k@g****m> | about 3 years ago | |
| 078832a8 | Updated fast_analysis documentation and fixed mutation rate estimation choice... | isaacvock <i****k@g****m> | about 3 years ago | |
| e4404559 | Fixed simulation bug for long/short label time edge case | isaacvock <i****k@g****m> | about 3 years ago | |
| 40841c3a | Fixed filtering bug for -s4U case | isaacvock <i****k@g****m> | about 3 years ago | |
| 4c53e7a8 | Updated QC documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| 158e7dde | Updated dropout visualization documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| 9ba49070 | Updated simulation and dropout correction documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| eb50698b | Sped up simulations and updated their documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| e9c42737 | Updated bakRFit documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| 4efb5ef7 | Updated processing function documentation | isaacvock <i****k@g****m> | about 3 years ago | |
| 3e400261 | Updated documentation and implemented improved read count filtering | isaacvock <i****k@g****m> | about 3 years ago | |
| 6554a5a1 | Edited object creation documentation and improved handling of metadf rownames... | isaacvock <i****k@g****m> | about 3 years ago | |
| 9249be18 | Better variable naming in NSS analysis | isaacvock <i****k@g****m> | about 3 years ago | |
| 1c872400 | Update README.md |
isaacvock <9****k@u****m>
Committed by: GitHub <n****y@g****m> |
about 3 years ago | |
| 0879d613 | Added meta analysis p value to NSS output | isaacvock <i****k@g****m> | about 3 years ago | |
| 69d71a36 | Implemented alternative MLE uncertainty quantification strategy | isaacvock <i****k@g****m> | about 3 years ago | |
| be059027 | Added required info to new NSS analysis (DE pval) and reordered output | isaacvock <i****k@g****m> | about 3 years ago | |
| a70422b5 | Fixed bugs to do with adding user provided fn se compatibility | isaacvock <i****k@g****m> | about 3 years ago | |
| 590cbc9b | Fixed a number of bugs to do with adding user provided fn se compatibility | isaacvock <i****k@g****m> | about 3 years ago | |
| 8e1bd318 | Updated documentation and allowed for use of existing fn uncertainty in Dropo... | isaacvock <i****k@g****m> | about 3 years ago | |
| dca25ede | fn processing function compatible with fn uncertainty passed by user | isaacvock <i****k@g****m> | about 3 years ago | |
| 1b1347a7 | Allow user to pass fn uncertanity to bakRFnData | isaacvock <i****k@g****m> | about 3 years ago | |
| 2704518b | Changed default number of MC samples for NSS analysis | isaacvock <i****k@g****m> | about 3 years ago |