d13457d23020f238025fcde84bc122ff *DESCRIPTION
22f3ac73416a9f6f47a6fdd25bfaa1cf *LICENSE
cb5383a9517d70c6efd212aeb7740954 *NAMESPACE
cebf0fc223eddbe9416a363b48967787 *NEWS.md
632e8a3ec963ff540ff26162a392f3a1 *R/00_alignmentHelper.R
1d7ff18121f8d47825530072e7754104 *R/00_visualizationHelpers.R
ddbe2495be6e76fccbe30c4d4fc6d185 *R/01_getPrototypeSeqs.R
01898e4a0b00909a0f185e486dbdf077 *R/02_alignToRefs.R
a89b722abbede2d745006342584194f9 *R/03_SNPeek.R
cdf3dca1c2679d569acb9488f9f75788 *R/04_countSNPs.R
2f984843072cfe6658ac82940ec31122 *R/05_pairwiseDistances.R
e066c31d15e6c2491bed108f9d78875f *R/06_assignTypes.R
a85a445196935a54dd27231b9dda36f9 *R/07_overallMeanDistance.R
a7131e06df8c3450f318fb37285fb323 *R/08_plotFrequency.R
714b488fb69bd7b9b782d5a065174b63 *R/09_plotDistances.R
6e477dc231683629ad7928fc45a847ea *R/10_plotTree.R
2d3622c7f8fc037ca997350b142d919a *R/11_plotAA.R
4e15df2d4c4dbdc1138c57f83832b6a6 *R/rhinotypeR.R
06f5fa438d5ecd83a7e5145a595301b5 *R/rhinovirusPrototypesVP4.R
3e44c19e9d94e4a09d6417e2933579e1 *R/rhinovirusVP4.R
b85ecbbbf19ba2ed16f72de6be888e68 *README.md
21c9401b8c07f38d762ade4612fc4ffe *build/partial.rdb
7cee3bb57d0d0889cc2c15101f526ca5 *build/vignette.rds
dc89706f8041e9c5003e3e26382ae01d *data/rhinovirusPrototypesVP4.rda
83c9bf7ddfe91e956fd74166c969ab40 *data/rhinovirusVP4.rda
a7efc9ea3e81f3b8936c1353cdbbf252 *dev/config_attachment.yaml
0f2f8bccb7966185659879f420bf02f0 *inst/CITATION
0248729476ec69acf08b6dea237e3a36 *inst/doc/rhinotypeR.R
c07241fdc5cb9aa17595a7971b9fe32e *inst/doc/rhinotypeR.Rmd
5be7c38443643f22bf750e2c159acbb4 *inst/doc/rhinotypeR.html
7190eede060265c7550467b5a5395d99 *inst/extdata/input_aln.fasta
cc7866fb15d2741a211bce1019e841bd *inst/extdata/prototypes.fasta
b9113b0de9a7eb7df1448ec5eabddbf1 *inst/extdata/prototypes.rda
e6288e89b20df1d85db4b04acf29ee74 *inst/extdata/test.fasta
19fe3e218d9b4adb2f103f330b2a7dda *inst/extdata/test_translated.fasta
0485a2f85adb392385d6f053210faf8d *inst/figures/example_fasta_file.png
ff464e4972c1631953323da35793e380 *inst/figures/workflow.png
357e2075948da5e17d10c079c6b783ee *inst/scripts/about_extdata.md
ef438a5cc2a80f6865f7714e949ac64e *man/SNPeek-internal.Rd
ea3964b9b4edfbb24be8ed2426321a37 *man/SNPeek.Rd
edfce70fdcaefe76b5ccd78d751a90b4 *man/alignToRefs.Rd
52f0692d326c9856b11c83d4031cedb8 *man/assignTypes.Rd
0e2e2e1761559f206044f4c080124aef *man/countSNPs.Rd
ad4d18e75a8db4e942b2c5364a3b0dd4 *man/getPrototypeSeqs.Rd
6c692fd578c2d42fad5f054ed50f8905 *man/overallMeanDistance.Rd
820b2eaa72cbc7026ee90fe046e3b619 *man/pairwiseDistances.Rd
f8aa49c4d8706932e823dbb29331ea83 *man/plotAA.Rd
9242fec652fa7debc8f68512a9180d6d *man/plotDistances.Rd
e8f52dcbfab0cdeca1d1d48f9cf1c53b *man/plotFrequency.Rd
6c40f64ce827eaf020fffc0735bc6e5f *man/plotTree.Rd
eb5dcd0fdeee7557ad5dab89ff7136c2 *man/rhinotypeR.Rd
f4e690f7e4ca94f5afff07222532cad5 *man/rhinovirusPrototypesVP4.Rd
cb09f7683147afe52209617d317cfeed *man/rhinovirusVP4.Rd
32e740499950300161ec5b9a73a46d8d *rhinotypeR.Rproj
994e77dec848120d77956fd09de2fd71 *tests/testthat.R
a3525712c6116bebf571991279615156 *tests/testthat/test-02_alignToRefs.R
31a5a080bb9485f1fbbb41f08285238d *tests/testthat/test-03_SNPeek.R
b465f46f579dbb9181c35371b8d92bd8 *tests/testthat/test-04_countSNPs.R
03602c925d235266eb2e4a71d33f75c2 *tests/testthat/test-05_pairwiseDistances.R
5336301125e0d263c41a34fe3739917a *tests/testthat/test-06_assignTypes.R
8e74216e722b8c3c9576e992e41837de *tests/testthat/test-07_overallMeanDistance.R
00edc5b38a23a795741ae111785bdbd7 *tests/testthat/test-10_plotTree.R
9ec90d3ee52cd63d8a4a92bc5d7dcc0c *tests/testthat/test-11_plotAA.R
c07241fdc5cb9aa17595a7971b9fe32e *vignettes/rhinotypeR.Rmd
