fcd820286b3691e813a0c2de315abc27 *DESCRIPTION
8c9e359ea75fcae2cc6b6d08b96424e5 *NAMESPACE
129efea42e4280ca2a033483f2df9449 *NEWS.md
e82619ff48bf1e7d80a993d71e308d74 *R/RcppExports.R
d897e3ee3be430d12fed36c34af11156 *R/aaa.R
7f99528626957ee313056f6d227a8704 *R/argchecks_lower.R
1b0127256eff9796f2c97e269475fb2e *R/argchecks_mid.R
6391fb3227e2b1fe16a04947d90007ed *R/arghecks_upper.R
ff9c91bf5030f4932cde73a9e534e148 *R/associated_clusters.R
1400d556fc0dc99059b8c116e4e86ba9 *R/main_function.R
1fb8c34854c1320d4d7a1938da6491c7 *R/network_analysis.R
d6c5bfac7b8153b4f850e4af3f1daff2 *R/public_clusters.R
3bddc7e7b8cfbe698030b2210f28e48e *R/sim_toy_data.R
2683cdff77095479a0a0d1ebd5340ae9 *R/utils.R
55e6b0c43cfee843c88b72317372e8bf *R/visualization.R
6cd76bbe073785d3c9187c60f082654d *R/zzz.R
a6353b4efaf97633901e174b4028abb3 *README.md
b52662669ac78a86aed2638cf265fe96 *build/vignette.rds
1fdc87033acfdb5a10a0f21db992e1e2 *inst/doc/NAIR.R
7cebd05336d42e93303b082b0df34656 *inst/doc/NAIR.Rmd
e1cf8bf6e4774ae3a81ee2577345cef5 *inst/doc/NAIR.html
c59fecb0a700b008fd4b307ae69e5cf4 *inst/doc/buildRepSeqNetwork.R
356da743cda95a44e461b639fe59e2c0 *inst/doc/buildRepSeqNetwork.Rmd
48b461c2f8e88e4b54db94779de40713 *inst/doc/buildRepSeqNetwork.html
c92db01cf0ee911762be8a51f24d7183 *inst/doc/cluster_analysis.R
97befd6b8552a30eb3486854ce49543b *inst/doc/cluster_analysis.Rmd
a7f461d032a9a079bb254d812fa489ab *inst/doc/cluster_analysis.html
4e6d8a399d2b93c2f5b9cc9abc4edc16 *inst/doc/dual_chain.R
4c622d4229c2531a9144c2d198387be9 *inst/doc/dual_chain.Rmd
5e0a7e31bea961eb35336f8c1754ad9c *inst/doc/dual_chain.html
63125937eef1f524006cf8b3283e6a00 *inst/doc/node_properties.R
4c3c72992bcf0282d33b934fb967a35d *inst/doc/node_properties.Rmd
797646360d3e2a03e2c6577be209e96c *inst/doc/node_properties.html
81e082fe10911de5242a867a26663642 *inst/doc/supplementary.R
52f6a9bbf9bc9cc418270e31c32874c9 *inst/doc/supplementary.Rmd
bc7e0e462285a2457abb57c2edb48762 *inst/doc/supplementary.html
a69a5f0d5f6fb1f31d7f40e093256d7e *man/NAIR-package.Rd
943f56bb927cc29d02c6a92ea7db9d94 *man/addClusterLabels.Rd
d2c9dc674b70cc5fe078d09d0e310d9a *man/addClusterMembership.Rd
ecc51f21c543ea3b2ae305c1a0519801 *man/addClusterStats.Rd
a46f26b0dc5a5d5daa54554a2babdb84 *man/addGraphLabels.Rd
7c25201d83432e484ed544c6f07242c8 *man/addNodeNetworkStats.Rd
c753941782942753c82d31372a1c729b *man/addNodeStats.Rd
fbebf59c1fd0b902419d01684e2f9329 *man/addPlots.Rd
8f552e82489f2d81a4cfc79e74c83efb *man/aggregateIdenticalClones.Rd
d214ef1ef50ea5298361d2a12518f587 *man/buildAssociatedClusterNetwork.Rd
0519e35d2c08b85a2de72f2704ad706d *man/buildPublicClusterNetwork.Rd
55212c5a241ec22e1128b8412ee53882 *man/buildPublicClusterNetworkByRepresentative.Rd
26b28ec253ee2ac626cac02c39147597 *man/buildRepSeqNetwork.Rd
b3a964561f6ef0794fb288fddfab2229 *man/chooseNodeStats.Rd
a952ad531daedd4278d47994940759da *man/combineSamples.Rd
73659223a9a763433891cc66ce0384d0 *man/extractLayout.Rd
cb1e46f469cfbbbde29c8b5113e1d789 *man/figures/lifecycle-archived.svg
c0d2e5a54f1fa4ff02bf9533079dd1f7 *man/figures/lifecycle-defunct.svg
a1b8c987c676c16af790f563f96cbb1f *man/figures/lifecycle-deprecated.svg
c3978703d8f40f2679795335715e98f4 *man/figures/lifecycle-experimental.svg
952b59dc07b171b97d5d982924244f61 *man/figures/lifecycle-maturing.svg
27b879bf3677ea76e3991d56ab324081 *man/figures/lifecycle-questioning.svg
53b3f893324260b737b3c46ed2a0e643 *man/figures/lifecycle-stable.svg
1c1fe7a759b86dc6dbcbe7797ab8246c *man/figures/lifecycle-superseded.svg
651cf9ad5cf8cf161776701ebb765519 *man/filterInputData.Rd
adf5abbaacd319338032e27ce247b64b *man/findAssociatedClones.Rd
602780a39d231879bbd6162f40516341 *man/findAssociatedSeqs.Rd
f1d8f9e19c22f9e5d655a73aa26f56fc *man/findPublicClusters.Rd
b3033814ecd8f8b03bc7d2961f78d9fb *man/generateAdjacencyMatrix.Rd
0b9889c8a829102fc078dc8c7c8de22a *man/generateNetworkGraph.Rd
4f8771d7bb77db338ff740b9b9a2758b *man/generateNetworkObjects.Rd
00a28daed06858f20a549caf5fa151bc *man/getClusterStats.Rd
d178a2bdb2ad409079e5c1528fb9538b *man/getNeighborhood.Rd
eb09925185cad9068246bbc350a18315 *man/hamDistBounded.Rd
92584996019d4855edbe4a15e1895aa6 *man/levDistBounded.Rd
326b137ccf5eb22de78ec3b346e42f9e *man/plotNetworkGraph.Rd
66df6b81082fe34af8f68d72afe95572 *man/saveNetwork.Rd
d4d65ffd62b481b96a3dbd1b3255b7a2 *man/saveNetworkPlots.Rd
4c8523fa17c430003b70aba95e813f1c *man/simulateToyData.Rd
3e073cd8eb90fed5b94fd92b5dc2492b *src/Makevars
3e073cd8eb90fed5b94fd92b5dc2492b *src/Makevars.win
69e7c5f4ae901f4e501d6492c07ec6ea *src/RcppExports.cpp
3e06084b7b550305bc50bdb10b3e4b51 *src/hamAdjacencyMatSparse.cpp
7c8adb06e8e9ed8089e2ad279795a996 *src/hamDistBounded.cpp
ce9d9080e61bd64b2df734203889f069 *src/hamDistBounded.h
fcc1461eb14159f6f9f870472676a9dd *src/levAdjacencyMatSparse.cpp
b2e903f1b596fb5e286ef97993231d19 *src/levDistBounded.cpp
77bf3926dcd196c580b4e1181bcbb85c *src/levDistBounded.h
3dafdd517505a570670cb3e891641e26 *tests/testthat.R
cab264579a0792f3d48c20803067e174 *tests/testthat/test_argchecks.R
ac3987fd5adf034aa340b8cfd9292e3f *tests/testthat/test_functions.R
7cebd05336d42e93303b082b0df34656 *vignettes/NAIR.Rmd
356da743cda95a44e461b639fe59e2c0 *vignettes/buildRepSeqNetwork.Rmd
97befd6b8552a30eb3486854ce49543b *vignettes/cluster_analysis.Rmd
4c622d4229c2531a9144c2d198387be9 *vignettes/dual_chain.Rmd
4c3c72992bcf0282d33b934fb967a35d *vignettes/node_properties.Rmd
52f6a9bbf9bc9cc418270e31c32874c9 *vignettes/supplementary.Rmd
