d0190777d255046b175ea39887dae9a6 *DESCRIPTION
1829964df5165ee74f1a93c8d8c210d3 *NAMESPACE
27a3cf42e9a29c1ac44068797f3779ee *NEWS
f80057f77fa5c53a79894d840c0cdbbe *R/AllClasses.R
0fdb653003556a9e01bb9ead0aeb03fd *R/CaucyCombinatonTest.R
df6cc46bc7fae1a55b713f3d5065b35a *R/HERON-package.R
8d13a685d5efe7fbf158fd1e0b21f91d *R/calcProbePvaluesT.R
396ef6d886a95a3fc065d753badc2cc5 *R/calcProbePvaluesW.R
9358da2466708eff111a087f56f8a61a *R/data.R
56fbc4f58e08e5e7bb40e88733fd3db8 *R/epitope.R
d8d5372e6102cfab57cfc35ab2e4ca8a *R/epitope_finding.R
bd7056bf56b1c901f1a23da64e88366d *R/meta.R
cd8216bcbebbded31ce2d8a0ea746342 *R/misc.R
5eba48b21e2e2929b68562a7b23191dc *R/multilevel.R
c3b2b71d9052c3be812d5a032da9f330 *R/preprocess.R
5dad17fa7ec5e2158cb3a92b37c52a0b *R/stat.R
32f787f6274df9a74f4a1e264045d791 *README.md
3e524059b081a466d49354093ed21887 *build/vignette.rds
a36da44db3c27569c45fa7efdc548823 *data/heffron2021_wuhan.rda
a12d5a6f982cf1622df1d8db6d4e4eb6 *inst/CITATION
b55ae0d0febbb37b49c043bbe2a2112e *inst/doc/full_analysis.R
86784c1d294d3e1a2c58b793269b3e15 *inst/doc/full_analysis.Rmd
799f5f783ac9cc72ee9b9a80c6a86b2e *inst/doc/full_analysis.html
fa776032f3d02940db2ac6775d57acbb *man/HERON-package.Rd
cb5f6bd9082d122e843b4c82416ea242 *man/HERONEpitopeDataSet.Rd
bb91c4fa335848cf466ee3a712c54495 *man/HERONProbeDataSet.Rd
9d8dffd5b7d85496a0cb5eff8dc88572 *man/HERONProteinDataSet.Rd
07ceb272e6c60b8c15fe516176291511 *man/HERONSequenceDataSet.Rd
61199601b97947e42dfc95c87555dfd3 *man/addSequenceAnnotations.Rd
3be299a83b0fe001681d647a3bb25ba5 *man/calcCombPValues.Rd
202aff322362bc32f959221adaec77c2 *man/calcEpitopePValues.Rd
4a8827df88d1be6014402c9aa18b6421 *man/calcProbePValuesTPaired.Rd
71da3873dfb0801e47c8df80d3c7013f *man/calcProbePValuesTUnpaired.Rd
a3b1962055a9fcfd956294f8074dc2f4 *man/calcProbePValuesWUnpaired.Rd
4dcb4c964d8b21e05a5382241289d6ac *man/calcProteinPValues.Rd
db56209115b7d775a69ea6969d40b792 *man/catSequences.Rd
402328334332d190b6ffe773c686d562 *man/convertSequenceDSToProbeDS.Rd
e08ba196681acfce87bf8d98628f81e6 *man/findBlocksProbeT.Rd
753406ad5c19739185b4ef4aa55454e2 *man/findBlocksT.Rd
793b297b379b87f40e377137e64b02d6 *man/findEpitopeSegments.Rd
7d8add6d658e8b83fa2d66eb664fc60f *man/getEpitopeID.Rd
b30401c5a932a0b3c749a29cbcbd1197 *man/getEpitopeIDsToProbeIDs.Rd
2c761bcbb4cd03e51c866f3231ed6bde *man/getEpitopeProbeIDs.Rd
b1881d10ca3a158e9455bc1758377094 *man/getEpitopeProtein.Rd
09d47dd4fffddb3fe64b85bf4a31c0ad *man/getEpitopeStart.Rd
01f53cdb282662ea77f2a2367eab3d42 *man/getEpitopeStop.Rd
bbc7f5d342307ca3791a32f8f6cb1d4a *man/getKofN.Rd
18ccb0394bc715c8ef43d5ab4edd3eff *man/getProteinLabel.Rd
81a00e284a74430c4eef7cd97580126c *man/getProteinStart.Rd
fbf2af09374966bef18baed15ed9f144 *man/getProteinTiling.Rd
10c22d494e209f584444775528118db4 *man/heffron2021_wuhan.Rd
8cb83361e94b2873bdc857116992d5fa *man/log2Transform.Rd
7b626a1629433e1c217c72213eafed9f *man/makeEpitopeCalls.Rd
7e37f617ab1c0762d8973ac7ef8e94e5 *man/makeProbeCalls.Rd
de72d27844e21009bab7435e961f1f08 *man/makeProteinCalls.Rd
f71addb24b01ddd0583f4abf74f48590 *man/min_max.Rd
06ac264f2d09c278eabc8d4044dfea69 *man/oneHitEpitopes.Rd
821dd2a000b419d35776ea22fab39af5 *man/oneHitProbes.Rd
a7e975bb15b629c125e77ec5e311548e *man/oneProbeEpitopes.Rd
4aeec0d9feb7c04f0a8c3174e00f97a3 *man/probeHitSupported.Rd
c2dcde61626b437df845232fc5174bea *man/pvalue_to_zscore.Rd
078fdb2987c894aecae23eadd975c26f *man/quantileNormalize.Rd
d7290141d99e5f7cc17494f29af77b68 *man/smoothProbeDS.Rd
1071a60734e4addcc0591ff0af38a33e *tests/testthat.R
3d1c9c5427de9792a715c0d8ffe03e5c *tests/testthat/test-HERONEpitopeDataSet.R
c672ae7962186f006d104db0cebecd7a *tests/testthat/test-HERONProbeDataSet.R
85aee3f634bbda3bcecf50cc6e3bb59f *tests/testthat/test-HERONProteinDataSet.R
843a0917c21598c4081eb8509c0bba09 *tests/testthat/test-HERONSequenceDataSet.R
4d28e01f0baa9e0051b2357242ce7e7f *tests/testthat/test-calcCombPValues.R
c6c57ce23bb3629bb6bd26370edcb666 *tests/testthat/test-calcEpitopePValues.R
46b8d6845ebd61240a9f3f07912e9f8d *tests/testthat/test-calcMetaPvaluesVec.R
cde175cfd0c7d384efb1cea555a20697 *tests/testthat/test-calcProteinPValues.R
b2dc8d2b12ffbcec81b33ca7ec642d46 *tests/testthat/test-findBlocksProbeT.R
08d1a859dee4bcd8172c39fcc88c9427 *tests/testthat/test-findEpitopeSegments.R
074f414b814f578ae5d80ca7180b7539 *tests/testthat/test-getEpitopeID.R
e3a63341b33de6751952a4cedd4701a0 *tests/testthat/test-getEpitopeIDsToProbeIDs.R
2f77f64b2d9188a844ad21035e94ec9e *tests/testthat/test-getEpitopeProbeIDs.R
87231efa0d41e23c5eba90ecf6410474 *tests/testthat/test-getEpitopeProtein.R
8e12099956a889a864c158607af18202 *tests/testthat/test-getEpitopeStart.R
809eba28161df37c25b2c59362f0ca6a *tests/testthat/test-getEpitopeStop.R
d10e5044481e3a5ada3f27fc99e51a79 *tests/testthat/test-getSequenceAnnotations.R
0123e29f601084896d19a1ff06aa88f4 *tests/testthat/test-log2Transform.R
a52d34ba32b4433be326b9c27ba872c0 *tests/testthat/test-makeCalls.R
8df693ef2aa8731604ce258155691cee *tests/testthat/test-min_max.R
77d41ae886477d7f1313a39605a6da8f *tests/testthat/test-oneHitEpitopes.R
bdfe3d89345defd76de5b56c5b064282 *tests/testthat/test-oneHitProbes.R
1b550ed871f555e0494f8cd656e65f7c *tests/testthat/test-oneProbeEpitopes.R
1a6dcf61adb7537e85db44b73c750638 *tests/testthat/test-p_adjust_ds.R
fac4fa79f58d204d8ed0178e8cc6a920 *tests/testthat/test-quantileNormalize.R
70b996dcfefdd568048ce4c954f66456 *tests/testthat/test-smoothProbeDS.R
86784c1d294d3e1a2c58b793269b3e15 *vignettes/full_analysis.Rmd
