1cff8ca64b0dc22ebb3eb707459e9309 *DESCRIPTION
28628b2a4d02f14b24c7b6697ddf0b2e *INDEX
978216b070957aef5d13aa545891b0d8 *Meta/Rd.rds
c01cbd2c8ee7ab226c34877ed0390dcd *Meta/data.rds
a3e67fd9c16cad93e1f3ab2cde262116 *Meta/features.rds
749094794508627b1caca35e4fdce127 *Meta/hsearch.rds
6dd9cf02729ce104579586c0283853f2 *Meta/links.rds
0f5a0a93fae66fa79bc53b6e14048c78 *Meta/nsInfo.rds
21802028a2aa7c6047a2c9aac4e3c0bf *Meta/package.rds
2de9c5c789c3c70582236091df64f0f8 *Meta/vignette.rds
32000ce2bf4ece7086849e8d1e3fc810 *NAMESPACE
41d2ac3cb5a093e22ce0caa505ecb0e6 *NEWS.md
d6c68f1fe41ced6e98a766a3757313da *R/WithinHostExperiment
c36beac1251cd407d39c020eefaf48e9 *R/WithinHostExperiment.rdb
1f279045a442d0a4558b0349fb9403b3 *R/WithinHostExperiment.rdx
50c8bcae4aa351c7fe46242c2fe43a11 *README.md
7dc5915cd62e807065c1a393236d7254 *data/example_whe.rda
bb4403f6a4654e7e025787fe87c2ff1a *doc/WithinHostExperiment.R
0a31b52720f5cbb058bbf93f14458cde *doc/WithinHostExperiment.Rmd
140342312704f1a86fc74bb3cc07fb55 *doc/WithinHostExperiment.html
73eeca4f7684391a6fb68cb8713f8300 *doc/index.html
c5c45ac3d187fc63deb671a2517c5157 *extdata/MHM1143_rep1.tsv
28dca28f3370e525917fa7991531544d *extdata/MHM1143_rep2.tsv
7b80a083dc22dd6413bb9f5d0bb0bf73 *extdata/MHM1184_rep1.tsv
c425f24fb4414cde8834314d04e71ef2 *extdata/MHM1184_rep2.tsv
e2b3b7b95adcaf57ffde5a11dd7f75b2 *extdata/test_coldata.csv
845d68cfcd8b4cada367262165cfca5f *extdata/test_donor.vcf
c5c1847a949beb9f98d442ccb56cbb02 *extdata/test_donor_freebayes.vcf
ada8739b8b6d1356feba27ed9906fcf9 *extdata/test_donor_ivar.tsv
25d9b149b33ca0cbb2250d21d5630130 *extdata/test_donor_lofreq.vcf
90f229fb686d31019a1fbfcf3c0dc6a5 *extdata/test_donor_rep1.vcf
99c73d1e4304d742372cb9b10c376745 *extdata/test_donor_rep2.vcf
27f0fc33cb4ecd19b0b288df3a645b50 *extdata/test_generic.csv
aadb901721491cbd17e26c6edb3470d5 *extdata/test_hiv_sample.tsv
33d99c7039d8dfb1927e4f79efeea07d *extdata/test_independent.vcf
d99f455e86b975996a5b329a54a31659 *extdata/test_influenza_donor.tsv
cb9a05e2535581a62177e930f616a1a4 *extdata/test_primers.bed
c7ef5ca7d558e0ca949005fac04adbcf *extdata/test_recipient.vcf
6b58810fdced52f9675854fb84e5497c *extdata/test_ref.fa
189620b80fc1615b8ec2157b68b819aa *extdata/test_tb_sample.tsv
072ecbac39830bf566fa3fc841f941c6 *help/AnIndex
15d686d561e108a557eb9b452bf193aa *help/WithinHostExperiment.rdb
7622e79ff04233c967b096f20e5819a1 *help/WithinHostExperiment.rdx
fed6b51949e6e092a6aabf9b823ca7a3 *help/aliases.rds
f60abb20e2c2100f6aba70239e0e4e5c *help/figures/fig1_replicate_qc.png
85a97c18d7be78c8fc9d595c02f1244b *help/figures/fig2_frequency_spectrum.png
035c5e1a3cffd37334910d5fa130d81b *help/figures/fig3_qc_overview.png
5a4644429a8f4e3d1dfcc95f0f87d2fa *help/figures/fig4_diversity_landscape.png
51af46a40be8e2b669fde27f17f2bc84 *help/figures/fig5_evolutionary_analysis.png
6e8158e70dc6d058588993e3f119834a *help/figures/fig6_consensus_validation.png
3b86d33dc12191d27455a619b61eddc6 *help/paths.rds
b5a0395f49001f50a427a5f086541fbb *html/00Index.html
ee41876c0116916bb04bcf4fe3e43d78 *html/R.css
55bba0564535585fab345c93d43361e2 *scripts/README.md
11f9854e133ff41346eef8b8e5f572d9 *scripts/create_test_data.R
733acdd7ada9cde60594ba6871e90848 *scripts/make_extdata.R
15f9ec7c8571688d714b04034bb54734 *scripts/prepare_lauring_data.R
d1ea68cdee71aa4babff7984e6fedd3f *scripts/save_example_data.R
