8bdabe66c0f0bcb10de7342582deabda *DESCRIPTION
7aebdb0d13ac3a58eefe1c050e06334a *NAMESPACE
225489418558da92a14040b033a9cf23 *R/HWE.exact.R
9e137aa43c0ead95195bf397a98b39d5 *R/align.reference.R
91d871fed3deeb80f996fa2c8cebbb98 *R/artp2.R
0b05c4f6f828f1cc25db19f6b3ce5e27 *R/artp2.chr.R
60dd21629151c9c1568068d66bd715a7 *R/artp2.select.genes.R
770e8106d9042a99a70ae22a79bd160f *R/assign.subject.id.R
6aaaa60b32b852f508d02afb98036f53 *R/check.misleading.factor.R
023ef6783ab50384ec0893df659b33f1 *R/check.os.R
e9a4174fb54ba2d01bf41181bac35054 *R/check.small.level.R
4f842d5acb23a70ff269e32bd8dc0af7 *R/complete.sum.stat.R
db9f02b31717dccc31801e147c3f2485 *R/convert.header.R
bb8f89c18b7f14346dfc97c9389b04af *R/convert.method.R
47a87c896105fa27555e757049f82ba9 *R/cov.svd.R
c45932333b6a7bc281c23ed832c5ed28 *R/create.formula.R
8cbc19e8daa652fc625ddd6b40ae7cdd *R/create.gene.cutpoint.R
48d26d9378ac399a8ad2b04e47b582b9 *R/create.group.R
169657485b31f90c50e20cd16253a5e0 *R/create.pathway.cutpoint.R
3189e20a5d59cd55ff8091c33003ea05 *R/create.sub.pathway.R
60be103db75ab94f5a6d0cc0b979cf4d *R/create.super.pathway.R
7a206349a7a4075acaa61e2cfbe5add4 *R/create.super.pathway.setup.R
f34f6aa8101a23c8f9775a16a27e9b1b *R/create.yx.R
3ab7b05b4920d98d9f0a169b1423d704 *R/data.parse.R
283d8b12e69b8eff40006195ad52fc86 *R/data.subset.R
8fe7463e3bb1138f332e53b06d21bacd *R/error.try.R
97ba84ce0f9206ef88e18cbd8db639ca *R/extract.conflictive.snps.R
95a92f5b8f4f566baeca4877073ee940 *R/extract.reference.allele.R
61497b6f00446d52a589a93039395bc3 *R/filter.conflictive.snps.R
00a876d9fb44a4b750b0456f79e46e02 *R/filter.raw.geno.R
af713de751aa3300ceda8955fd211438 *R/filter.reference.geno.R
a51fb4e46395d71d6422efcea9653067 *R/find.snps.in.regions.R
1a0ad7409dc3ff46180f37a6e469253d *R/generate.normal.statistics.R
61849df91b0abfdd32ef19355583399b *R/generate.pathway.pvalue.stat.R
60c4f5482e313d164eca0cc53fd342c3 *R/input.type.R
d56a0777aed3f6fe9e75549782a078ba *R/load.pathway.definition.R
c5b728a3cd5fb2e7f92a8a96134c673f *R/load.pathway.set.R
5d453014898888f45ae062803fb63851 *R/load.reference.allele.R
1a45bc1819aae494923301f3d5ca7aee *R/load.reference.geno.R
7479cd60a3e96811e4a1bfdc3d3eb474 *R/load.summary.files.R
f4acc59d5df7cac7d68d4a0659baffb3 *R/load.summary.statistics.R
283d141ba70ab497b436e276e4a43a04 *R/map.SNPs.to.genofiles.R
bc4d0cb9ea70c87acb2967e4c6c123c0 *R/map.SNPs.to.plinkfiles.R
b1b86ed0770b59ab3af308a3a0de4241 *R/merge.setups.R
144c96d005b3b74d57f4742c8635fa55 *R/merge.stat.R
21a250fff83dc8de7958128e7a02b392 *R/meta.R
5b254520d7fde26dfe99307d2e66e67f *R/multiple.comparison.summaryData.R
7783f81979d37f2e9a45b867453b733f *R/multiple.pathways.setup.R
62f8f1efa21ee20a10938eb1d2e40b41 *R/norm.stat.test.R
18d9a7a595982d4c58a45445cfbce638 *R/options.default.R
83fce14674a3d23beb77b1f3c171f87c *R/options.setup.R
f9ee67cdf659ed2a69c8773e060c1997 *R/options.validation.R
4a7da2598661ee1d997956b0ae9956d0 *R/pathway.rawData.R
0e38f33e8aaa5364a9ba02131970d89e *R/pathway.summaryData.R
d006a7c386efd60175e38d88d1471b28 *R/pathway.warm.start.R
5893d45e521ca2479a203014ebe426af *R/rawData.dataframe.setup.R
cc76ff93f95054f6df4223f4abcf4b19 *R/rawData.genofiles.setup.R
e6497c380da08370bc1adec70fd9aa7f *R/rawData.plinkfiles.setup.R
afa629aee79aaa14b7b261e34178c6f3 *R/read.bed.R
4b900aa30643c15051f5cfaca537268b *R/recover.stat.R
afad81784342ff88bc618e5f340ce219 *R/recreate.pathway.R
3c8695fbfb30c3f8cbdc5d94a39bb6cf *R/reference.type.R
12da2665169bcc886806f82d60657670 *R/reformat.reference.path.R
8bc61093e6eeaf0c919e388e6d484b87 *R/remove.conflictive.snps.R
09c45f6a75fb3f4855b35cb77caed57e *R/remove.const.covar.R
b68d2f0a9695f1b6cdeb94cc881644c3 *R/remove.redendant.covar.R
2bb51dfffb5183b8e7eeba3ae951e3dd *R/split.pathway.R
57e0ac9ad938442f3f704d2b80220b6a *R/split.sum.stat.R
0c073d2413607c65d4c431ed844a3d96 *R/summaryData.setup.R
7397e85b558c64810bc50d2798a9c733 *R/test.R
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d0e036fee630c3849751c3013a439437 *R/turn.off.SNP.filters.R
87352cdc245af2a5639d2c3990ca2f55 *R/update.allele.info.R
735fac58d3dec456c828201c364b6dd6 *R/update.deleted.genes.R
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e9513a6f31cb157f3fb495310b64bcbf *R/update.pathway.definition.R
4390563cbd121a827c4591a1918a420a *R/update.raw.geno.R
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9518dbe0c589de5cc75d77db93f3cb81 *R/update.ref.snps.R
c0e2a77ec7c89897aad6bb0ef6a72979 *R/update.setup.R
ab674205b3f1076b9cbae623e9d0cc57 *R/update.sf.R
efbd1b57b527f79880fe6786b56ba19d *R/update.sum.stat.R
4833d2d4554866c1a6eccd4c632a1da4 *R/validate.covar.R
5c76b248149178a16d3a471989404935 *R/validate.family.R
fb9728584ab949efb76c9f93858ac3b1 *R/validate.genofiles.R
58e453e577a7f6bfd36bd78e1d402e9e *R/validate.lambda.rawData.R
39f98c5bd50d7aa96bb8c39c4b8f61a1 *R/validate.lambda.summaryData.R
d027d37341ef8bb3756abf8095da8758 *R/validate.outcome.R
66e8b2a20a231dea06891e7f4702e349 *R/validate.pathway.definition.R
735f51fe30db22b5532d367590290648 *R/validate.plinkfiles.R
c7684abef0725b38e9917b60ba8bdf4c *R/validate.reference.R
ce61cd08596e48015a8704c5fa53d148 *R/validate.sample.size.R
97a7694a9fe2791d663cb2e2d6b7ecfa *R/validate.setup.R
86c4c88bd142ed9d4be3ff623344e213 *R/validate.summary.files.R
e892867112447805e9801977e312c062 *R/validate.summary.input.R
636246d6cc2b42f53819dc59a0cb6718 *README.md
9731e44141a963648dc4c5c3ed974251 *data/data.rda
e3a0f77e46eac3d90b912f7f2f7db5af *data/geno.rda
6e12e08a957c8a1fc54208490fb24a6e *data/pathway.rda
65ad69f2e511eb9225c2ee9c556445fa *data/ref.geno.rda
b71cb95428dfa47223e7bea7c17e8e69 *data/subj.id.rda
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8676b58ee93e1a5ab10a167bef93910f *man/ARTP2-package.Rd
ae05a9106f131add25bd8965abdec3ce *man/data.Rd
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9ae2547cdc72ce7ed8b34125e408fd3f *man/meta.Rd
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45fcfbcc1f26995ee4cf968d4d746b3c *man/options.default.Rd
8738319ba53eeb9d76381f9f5be6653e *man/pathway.Rd
8171fc58411989f3897b807f3b2ed75f *man/pathway.rawData.Rd
79bf061e7587dace005893280ac387a1 *man/pathway.summaryData.Rd
3761226401eae4cb28ab4914336aebec *man/pathway.warm.start.Rd
6f535a61f9955aa8824a518b3bed9360 *man/read.bed.Rd
f38e6f3ec8750bf02e4fb280d6600ab0 *man/ref.geno.Rd
629acc8b59f64bf60d4600afb82e51cc *man/subj.id.Rd
24feac2a717f628521908ca053e0b1c4 *src/Makevars
e3d3cb360fbfdb3c6974e14eb5f09870 *src/Makevars.win
09d957021aa10262e300e99c7f80fa71 *src/ReadBED.cpp
4f8fe7c05e746ba5a495b1293c184e6c *src/artp2.cpp
ad050910c51274d7e921d16ba91a93a5 *src/check_nthread.cpp
4080ab1d7c877bcfd95b57fd95dc3a0d *src/check_os.cpp
24b6f811b9b7bbacd4e4db8240c799e0 *src/test.cpp
43cd8e2e6f82e03e4513e70fbcf733c6 *src/util.h
