93416cf4caf60de23607749df9ddb0b1 *DESCRIPTION
f7a244bbcd839c17b5d6da191fe4b7a7 *NAMESPACE
2a76f18183fd1baa3669261720ad1f5e *NEWS.md
69597a1f96fb15bba80d00424b23e326 *R/Baseline.R
e1580358ac891ce222f0fc0be2f1dd7f *R/Core.R
6e12bf548d4a09c087b9b49c1aa97f7c *R/DistToNearest.R
14ba6753a414a6c7608e8eb9740fe35c *R/MutationDefinitions.R
b272473e2bb1d8d550d2040cb0610eef *R/MutationProfiling.R
cebe2c02723913d6bd5adab0d18de21c *R/RegionDefinitions.R
258d3c312dbd391ce33167b81dc37677 *R/Shazam.R
58acb9149d747c13a7b85e52e781724d *R/Shmulate.R
9a7a7d9b8147aafdfec325cb9e778105 *R/TargetingModels.R
9ae1068d1c679ee9833dc1f3756a2294 *R/sysdata.rda
2b732279471f311c9cca7493c5de57d1 *README.md
2b449532bea9e797e60783ecdf86589f *build/vignette.rds
e7e3fb96f13ebe5ff7f30a204c44f112 *data/CHARGE_MUTATIONS.rda
e65939ed96f62bdb7e81cd4198ad0274 *data/HS1FDistance.rda
6d2899f1e9231832032bd64b8b81f4e8 *data/HS5FModel.rda
7d621c815a2cf4be20eaa0354d77501a *data/HYDROPATHY_MUTATIONS.rda
6cd4e0a3cac26a23b87b459ee499bde0 *data/IMGT_V.rda
bdc040cf783424c715d93934056ae6c7 *data/IMGT_V_BY_REGIONS.rda
0acaae0d5edf2a48843f3e1e99ea1064 *data/IMGT_V_BY_REGIONS_NO_CDR3.rda
eb273b0487409b94b9b36cd416e11058 *data/IMGT_V_NO_CDR3.rda
bcb84fe108cee3bf414ceda1ef5413aa *data/M1NDistance.rda
f6bce2aca44171d76373b6707a0bda29 *data/MRS5NFModel.rda
5a4160145b4bba0f76066726274c8cf6 *data/POLARITY_MUTATIONS.rda
746a059bbfafbe9d2447f0f7998be256 *data/U5NModel.rda
b5164066cf2fd04b883d9342f9f37093 *data/VOLUME_MUTATIONS.rda
ce3251fa6c761f9c603d8b258004577f *inst/CITATION
3dafc9448a0cffa45db606cae2cc4926 *inst/doc/Baseline-Vignette.R
5e3730a1840bd512691623c61433c089 *inst/doc/Baseline-Vignette.Rmd
eb4286eee0fb1c8065ddedf9ddad594d *inst/doc/Baseline-Vignette.pdf
361478e728670e1c545a483062862995 *inst/doc/DistToNearest-Vignette.R
7d265246be382abe8f3044ee58f7b267 *inst/doc/DistToNearest-Vignette.Rmd
8bc679a2cc4d9a7ee8d22b2ac7f84f64 *inst/doc/DistToNearest-Vignette.pdf
7a94e409727fcb9cb0de4b8404244a4c *inst/doc/Targeting-Vignette.R
1785012971a135beb456f26bb9d1c144 *inst/doc/Targeting-Vignette.Rmd
15ede0ea5f3dc5296b7c96ad81d78ab1 *inst/doc/Targeting-Vignette.pdf
bdf3c40f1ad2693ec1a4ae1a380ec962 *inst/markr/build.R
8deff3ed730d812f127e54d43f0eb036 *man/Baseline-class.Rd
dc9868b95716fcb7081e49a41bf85c04 *man/HS1FDistance.Rd
26a88b4221f6927b53cccdae4bbebcff *man/HS5FModel.Rd
4d55007caf9688a2987c0a1e35e3adee *man/IMGT_SCHEMES.Rd
c07b4d5eca3ece3b8437dec60d73f669 *man/M1NDistance.Rd
9d3cf9984f59477af702171a7b822c0f *man/MRS5NFModel.Rd
cf932732d1599558d0d9be99b4c1b82f *man/MUTATION_SCHEMES.Rd
6e5846811b1462345dca37808e73aac3 *man/MutationDefinition-class.Rd
5df89b7d90c48c16a64b9c4a187e1d3b *man/RegionDefinition-class.Rd
eb122ff0888417b6639374c925720c6b *man/TargetingModel-class.Rd
3651f075ca3e16b134503636e56958b1 *man/U5NModel.Rd
384a54400bce51eeb54bd300127aeee5 *man/calcBaseline.Rd
b2ca76b233de1d1d2e84138ee3e0a1f7 *man/calcExpectedMutations.Rd
8266dd7494926b1e04b6af75bba3b873 *man/calcObservedMutations.Rd
18e71b393af5186bc7d8a5357b4338df *man/calcTargetingDistance.Rd
caedf9b3c2748a62a03736df34d730ce *man/clearConsole.Rd
2b584290742537696646799695875b3d *man/collapseClones.Rd
69058fe26fecf704caed8edcd454f4ce *man/createBaseline.Rd
efcd109ec44a12edad5f2a3ed829e7f4 *man/createMutabilityMatrix.Rd
c2c33b88d0be4504c18c7c553727b311 *man/createMutationDefinition.Rd
fbc8cf68d219ab46624c3a7aa7780615 *man/createRegionDefinition.Rd
d32f4293ca074a2d3883cfa8ed612cfa *man/createSubstitutionMatrix.Rd
581f9df57b66ee633c6b0ac1fef2d0e7 *man/createTargetingMatrix.Rd
1a38c5ea5bc6e125cc8157a727d28a76 *man/createTargetingModel.Rd
d8f7362c2829e3c6d75b389ed3e9b5e8 *man/distToNearest.Rd
14b9e0ee92f0c3447beced6a0e91c562 *man/expectedMutations.Rd
0176a98309ed31a13c54ffcb43ebd367 *man/extendMutabilityMatrix.Rd
a2723243a7adb67bbaa7156e1ffbe32e *man/extendSubstitutionMatrix.Rd
f526bc6497050d7157f49c1ca535aa77 *man/getBaselineStats.Rd
4169cb0439df4412f181dbab17d1f978 *man/getPlatform.Rd
b474918ab362b8bf10dec25299667278 *man/getnproc.Rd
dab5831ae43a47e9bffdfc8a3de86a20 *man/groupBaseline.Rd
b0ac0e830b3cf387c034685d06a6bfb1 *man/observedMutations.Rd
11a1589946ab3197a79d1de91e837f73 *man/plotBaselineDensity.Rd
0a761902c2fc7d0a7d455ae6b5887274 *man/plotBaselineSummary.Rd
14ffb55b5f525a9662d40bbd08228ff2 *man/plotMutability.Rd
eea740b7b97a4a6a8ccf854f8a115bf1 *man/shazam.Rd
2ace7af31a8abd4d69f66a1ab31de23d *man/shmulateSeq.Rd
dea7af075f92c82172ac788c929a84ac *man/shmulateTree.Rd
e4616ca20dea6a8ac5d4a9eb7ea3729f *man/summarizeBaseline.Rd
af255b42b8ec3a59487083c2e3ce52a7 *man/testBaseline.Rd
2918c3c9f26e7bb2566497cc2210af2d *man/writeTargetingDistance.Rd
5e3730a1840bd512691623c61433c089 *vignettes/Baseline-Vignette.Rmd
7d265246be382abe8f3044ee58f7b267 *vignettes/DistToNearest-Vignette.Rmd
1785012971a135beb456f26bb9d1c144 *vignettes/Targeting-Vignette.Rmd
