e60777cc10bdcd9e695b614a24c88457 *DESCRIPTION
be14dc58ce2a889b209d1808d86f009e *LICENSE
89b222c2d6876ea330e2b5cf7f8be634 *NAMESPACE
f00002b2e8af4119bf2bbafc9d6b7cd8 *NEWS.md
cbba4c82884edfaa7bd2b2240cc9a78d *R/aa_properties.R
c81cf6d30abcb175d348873ab425d5d2 *R/diagnostics.R
afa354e40e57af1eed693be0b453ef57 *R/digest.R
03f0a94cdbdfd0a484e7d33a59ea28b7 *R/evaluation.R
ef577c3599f399c5363b63a44fab3606 *R/export.R
6c9878ce4e30bd3e6ea61071fc59f1f7 *R/pepVet-package.R
7c7c5d12931aa78f09a5a739e098317c *R/plot_batch.R
5f471a0d07784e0ab8a101698995f94f *R/plot_comparison.R
afcd72db7af2574f484c1cbe16c943d6 *R/plot_distribution.R
6683c76a587195fbe2bc2615ec520053 *R/plot_single.R
b53ca7921443b3d0cc0dd2f68dfb1a0e *R/plot_utils.R
9790910d36db957f2c7fc060645edff1 *R/report.R
dab728dcb3032b19645368832421d78f *R/scoring.R
f2d39d6bf7d3d9bdced1111c4a89cc7e *R/utils.R
1d6b57efa2df207e5a0ed7a36e70e536 *R/zzz.R
84f3a1faa5b75ba159f9a5626e278684 *README.md
21c9401b8c07f38d762ade4612fc4ffe *build/partial.rdb
57030889c396dd75c5d21ef47e80a778 *build/vignette.rds
ae5f46bf4164af096868fdb06cbf0a3b *data/aa_properties.rda
67492044eeec3389477f7ea22c3f86f5 *inst/doc/pepVet-introduction.R
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a9d347b9239f35b73f353449a5e159d9 *inst/doc/pepVet-tool-comparison.Rmd
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880a4ebdac985c495365dd1cd983a140 *inst/extdata/P00698.fasta
edae73607fbfe0c24daca1fe1ae0a1ef *inst/extdata/P02769.fasta
0140738eb592e6610746ef9084b6ebb7 *inst/extdata/P0CG48.fasta
92d20298a798d69958fb9cee0ae56bec *inst/extdata/P37840_isoforms.fasta
c13920346baac5ab787ee13fafbf10dd *inst/extdata/P56817.fasta
4132c5209fce5399c196c2b9650de517 *inst/extdata/P68431.fasta
bf0db781223aa68e88992917a40ea5a9 *inst/extdata/Q8WZ42.fasta
371ed17fba4b882f150692d01768b5bf *inst/extdata/README.md
cf82e514491be95e677922c26b4d41c2 *inst/extdata/comparison-data/sectionA-overlap.csv
aa694b2d4ec950f285c49c75549e2545 *inst/extdata/comparison-data/sectionB-capabilities.csv
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17f0317b7f514615c109a1a0033a734c *inst/extdata/comparison-data/sectionC2-presets.csv
ad5895b29dd83120655c11b3a718b972 *inst/extdata/comparison-data/sectionD-peptideranger.csv
ee3f4e6d5d812100e812b1c700fe9e57 *inst/extdata/comparison-data/sectionE-protein-cleaver.csv
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ef2bd853236b8d04e114d34067be0db4 *inst/extdata/peptideatlas-concordance/grid-search-results.rds
af5d8b2bb5d04df99a0f132538f7d314 *inst/extdata/peptideatlas-concordance/per-protein-results.csv
44442ee2bbf4091ce4c4425f48a0f680 *inst/extdata/peptideatlas-concordance/per-protein-results.rds
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d9af660f219ed5d5f82b21a4a5b5a8c8 *inst/extdata/small_proteome_50_proteins.fasta
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754b4c08d4c8ae4a43315ddcec5399cf *inst/extdata/tool-data/msdigest-bsa-trypsin.csv
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bb0cf8596eeefce37280e98c99d333a9 *inst/extdata/tool-data/tool-compare-expasy.csv
a5064e63df76c38425e57f1ddb5b90c4 *inst/extdata/tool-data/tool-compare-msdigest.csv
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8609cec4710623cc0b7825e604695a92 *man/aa_properties.Rd
cf1bc0d21f7c2c43e8f4d7d1d751d2fa *man/annotate_cleavage_sites.Rd
531ea80b4a60755c98db8b59e1c0712a *man/batch_compare_enzymes.Rd
28663d8f5e2b149a8b78ad00bf7dcbf0 *man/batch_evaluate.Rd
2a7d56e88ba2475d857c2ba5f6bd8e69 *man/calculate_pI.Rd
43dba1e0bff5e52b4213e2d87a2d29dc *man/calculate_peptide_mass.Rd
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8c94eac7d35eb32bb620faee8f3c1d58 *man/figures/README.md
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7c87ac755a081771d08b7cce799bfeb8 *man/pepVet-package.Rd
2367634edc2540b951a0b119545cd662 *man/pepvet_check.Rd
98927e8089236df516a0c28d830daa12 *man/pepvet_plot_config.Rd
41ff56bf0f956fbac8413e3f9c8bfed2 *man/pepvet_plot_config_reset.Rd
4919f8e857e16237064f92b3a5977e7e *man/pepvet_preset.Rd
1f10476c178c31d5f130f28c4cd5d7b9 *man/pepvet_save_figure.Rd
0add8c9c7e332516e699d82e1b73b51b *man/pepvet_theme_manuscript.Rd
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da89a5aac5d7ab1062dacc1f58a2c04b *man/plot_batch_comparison.Rd
00d0fb3e7f039aed336588af1b6f4515 *man/plot_cleavage_map.Rd
633f630c29d785d66c4f8712f800474a *man/plot_coverage_map.Rd
db4360383e2ac4a2d8464e8bff447e1a *man/plot_digest_profile.Rd
e33b2fb1c9f2578ecafc45d924233fa1 *man/plot_enzyme_comparison.Rd
717e9fa532cbd620f98d3f82d23012ef *man/plot_gravy_landscape.Rd
c163b3fe556b4e30f7d3ddb640870a5f *man/plot_length_distribution.Rd
ac42acc9fd29585cba74f55a097a212b *man/plot_missed_cleavage_impact.Rd
dc9d1e2d822aec0428b00b71dd97ee18 *man/plot_mz_distribution.Rd
b6f618422a884b5acabb86bee0303a39 *man/plot_pI_distribution.Rd
156bcb141f6016039fea198afa105e71 *man/plot_peptide_overlap_map.Rd
d3901d1a22cabd2e205965adcfd01960 *man/plot_proteome_overview.Rd
53576b2cc474efe78278a1e2bfd02376 *man/plot_score_diagnostics.Rd
926b38e046798172f785a995269bbbed *man/plot_weight_sensitivity.Rd
cbaf522a63937d0fb8a004ced290f35e *man/recommend_enzyme.Rd
09d2748d0d9c2b1aebb114896dd56b96 *man/score_diagnostics.Rd
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47403bd52c9a97b16221c0d11979bec9 *man/sensitivity_analysis.Rd
00dedfccbe18d7b4d2c0cd92c9a01410 *man/summarize_batch.Rd
16a57ac9fc637a847e535a602e0128fe *man/triage_proteins.Rd
a81b2a6aea8df36f5bd7ea3271f9451b *tests/testthat.R
1a275bfc0203de8f70ed9b9aff8261cb *tests/testthat/_snaps/report.md
a92ed2186687d49ee6489767d4ca13b2 *tests/testthat/helper-fixtures.R
a53f3f90e692abc959d233a63369e969 *tests/testthat/test-aa-properties.R
2438c63bbb61a869c0cef826fc3e9e78 *tests/testthat/test-data-artifacts.R
c3eb4476c0a9cf7579a9dffffe3e6bc0 *tests/testthat/test-diagnostics.R
a8f32abc457258f9aad57ce5ca0564aa *tests/testthat/test-digest.R
5249582f3b801cb5b58fb19a8aa50ed8 *tests/testthat/test-evaluation.R
d42ee8e0d09b04d1b6ccd34254f48e6d *tests/testthat/test-export.R
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df2361b96167451e57dcf48cdcff770c *tests/testthat/test-plot-utils.R
218d51c86df01c67600ad40fa0d87e01 *tests/testthat/test-reference-fastas.R
36508198862892168dfc959cba6e3dc4 *tests/testthat/test-report.R
cfea18bea0b9f76a58b9177687328331 *tests/testthat/test-scoring.R
155fec3d2de7599ce534abe91ec8c6dc *tests/testthat/test-utils.R
65986364b6b05071d658d8f9850b2730 *vignettes/articles/enzyme-selection.Rmd
5cfaa93e692a63e05acf9b527dc4bd51 *vignettes/articles/peptideatlas-concordance.Rmd
4c2b1a60c36de7317a3e6da90bcfa39e *vignettes/articles/score-diagnostics.Rmd
8c8efcac2e1f7f56ef51cb5084ae7ed2 *vignettes/articles/scoring-model.Rmd
34983351ba21bbe552a1d96b8cd214ad *vignettes/articles/visualisation.Rmd
092f354c5319ab2953fda46ad044969a *vignettes/articles/weight-sensitivity.Rmd
92e7a8fb84ff79f379684be38cde0cbe *vignettes/articles/workflow-presets.Rmd
95e21747ac722bb3a4a1920c2b21f942 *vignettes/pepVet-introduction.Rmd
a9d347b9239f35b73f353449a5e159d9 *vignettes/pepVet-tool-comparison.Rmd
