3321ea5921473f6034f2ef346e1eb7af *DESCRIPTION
64b7c15e1bf6c360d7fc1229cfad4632 *LICENSE
f75b5c5b9fb680ab4b52bf8411c9f2d6 *NAMESPACE
b9a233bf7b02f084a88c0496b7b645f6 *R/again_gapped.R
d4e095111f7eaf2f617bcbf01aa91a56 *R/agvgd-package.R
ec5e12f38f4a7475a2f7e4c86a67ae57 *R/align_gvgd.R
d2804922923795159b303c8695bd9912 *R/align_mat.R
2b98f71425c6341312d02803c98404e9 *R/alignment_file.R
2f2fca44ba78645633aa2accc24ca6c2 *R/alignment_pos_to_residue_pos.R
a40d6ffa2585941f2fa947bd003bbe51 *R/amino_acids.R
eb0d58396d09a282782505fffa083146 *R/are_all_one_letter.R
4951fe18af196caa9c4181c45f5dfab9 *R/are_all_three_letter.R
a20e1e8174cec5b7771cc7f8a6d28a69 *R/as_matrix.R
09a8bc324ecd6ab28c4b0f75f5df9592 *R/as_three_letter.R
87b9226a8068a0cca4ca3bc00ead610d *R/cpv_ranges.R
8eede6efe6f56f56d8bda5b84ec846ea *R/cpv_ranges_after_gaps.R
c370ab3ba34a49c275a00d00fe85d184 *R/dev.R
7fa99f49354b252f7dfb9323b6903d91 *R/filter_alignment.R
51eb5995ea173c7e815b44aef0e355f7 *R/gap_cases.R
3a4feefea90c3c3ea5164a301e48cf09 *R/gap_padding.R
225c16c61c3ba41e17eede3565b3a7e1 *R/gap_streak.R
fa7632bc658997d7cbc5c167a5a1d3f6 *R/gd.R
96190ea4f128fba9c11259f25027412b *R/gv.R
6100edafbe1f92b66d1f2e54f9655c16 *R/gvgd_to_class.R
66450abb5f7c1693ded1effccd0252cb *R/line_annotation.R
c6a1d7654b49fc69594ad2306a488d5d *R/line_start_positions.R
6b939eb556c50f1368296cc5c4f70d63 *R/matrix_to_list.R
c5efd88a542c126b63ca8988c114c79a *R/max_seq_length.R
ee504d27cc47f28f8453ca8cf2cbb2a2 *R/nr_lines_per_seq.R
e61cf3d6789d8b7741bd3b5a06b62d58 *R/pad_seq_names.R
d7d1d00f4f7a5afbd0767513009b6ccc *R/padding.R
2176b6bb90b281e1b8a4750488118c6b *R/print_align_mat.R
bf59374391270a654681d7709b93530e *R/read_alignment.R
cfe9a7cdbe3363ea64a907bd089509d9 *R/read_substitutions.R
f232f06c199b33150b6371c9dd2e1c15 *R/reference_sequence.R
4f49727a609a86baa0359dace642c31c *R/residue_pos_to_alignment_pos.R
2718687996c050406374c713a566e6b8 *R/split_alignment_by_lines.R
b5977aec0a70fff39deee18f12974c40 *R/sysdata.rda
b56ff2b193ecba52f9ec7f3b10cca008 *R/utils-pipe.R
66b7ca6f82cc9866d4948feb179351e8 *README.md
57b18176b43c7ba4786ac4c5a0e3d6db *build/partial.rdb
355f2a4eaad60a7aab7ef96fe257613e *inst/extdata/ATM4_Spur.fasta
0f4a7c798a05f026fa16c0b37f81efeb *inst/extdata/BRCA1_Align_Pufferfish.txt
3f1a360c4277599a9aa42171abb14a00 *inst/extdata/BRCA2_Puff.fasta
82e19a54dba390556413779308bdc4a3 *inst/extdata/CHEK2_June_2010.fasta
cfeb00e3dfd59e7b91eecf7f3e47273f *inst/extdata/MRE11_all.fa
c437f05bf82215da9c7b20dd125b8626 *inst/extdata/MSH6_Align_2010a.fa
e44b562defe0720a7f64187e40813b52 *inst/extdata/NBN_all.fa
dba88040ea088b6198883b8ff7d3590a *inst/extdata/PALB2.fa
f89e75543fa1654fd1d4a4a4572394e0 *inst/extdata/PMS2_Align_2010a.fa
f7de13cb2474af79c0e9e024ac6dad9e *inst/extdata/RAD50_all.fa
8abb7cfc29d781a98584cb94c4df2200 *inst/extdata/RAD51.fa
eab55da96d535b628217656c8cf50bbb *inst/extdata/XRCC2_Tadh.fa
136310f51eb28d2c5aeca50126985e76 *man/agvgd-package.Rd
4a5e58c5a0588f31b31bddd6caf63540 *man/agvgd.Rd
84e72e8540446025593eacc18be15e75 *man/alignment_file.Rd
6b65a848c3166cf0627393024c81d15a *man/alignment_pos_to_residue_pos.Rd
4c5b71fd6a8bf513ee4cf0016b48a6c2 *man/amino_acids.Rd
cbd2d98c8195cd4d22d46f9cb245c826 *man/figures/README-pressure-1.png
edb6ba6c574b7df7273924f789d10afe *man/figures/cintesis.svg
3f12f0fac407a5f8ecab63e6b553c4e4 *man/figures/logo.svg
774d9de8e95aa151215efcd304549d41 *man/pipe.Rd
76d6a59380698029f24a915ca85f6a5b *man/read_alignment.Rd
e7dab2eb7fd7d0fc6afb22b974172275 *man/read_substitutions.Rd
66a57821011f993bd89cf16ae535547c *man/residue_pos_to_alignment_pos.Rd
6d3a792ecc477901d8a86e09f0497f52 *tests/testthat.R
37aed0cc598513a4e00701a2ce07abe3 *tests/testthat/test-again_gapped.R
48ebc7fca19be550b0134e06bb470564 *tests/testthat/test-dev.R
c38c0cf9749aafc0a72f9936eb472e79 *tests/testthat/test-gap_cases.R
d4ed6aea3807260c44b39310c616541b *tests/testthat/test-max_gap_streak.R
