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github.com/RagnarGrootKoerkamp/astar-pairwise-aligner
/ functions
Functions
930 in github.com/RagnarGrootKoerkamp/astar-pairwise-aligner
⨍
Functions
930
◇
Types & classes
197
Function
kmer_removal
()
pa-heuristic/src/matches/inexact.rs:377
Method
last_frame
This function may be called after the main loop to display final image.
pa-vis/src/lib.rs:97
Method
last_frame_simple
(&mut self)
pa-vis/src/lib.rs:111
Method
last_front
(&self)
pa-base-algos/src/nw/bitpacking.rs:676
Method
last_i
(&self)
pa-base-algos/src/nw/bitpacking.rs:672
Method
last_i
(&self)
pa-base-algos/src/nw/affine.rs:236
Method
layer
(&self, pos: Pos)
pa-heuristic/src/heuristic/sh.rs:94
Method
layer
(&self, pos: Pos)
pa-heuristic/src/heuristic/csh.rs:352
Method
layer
(&self, pos: Pos)
pa-heuristic/src/heuristic/wrappers.rs:110
Method
layer
(&self, pos: Pos)
pa-heuristic/src/heuristic/bruteforce_gcsh.rs:152
Method
layer_with_hint
The internal contour value at the given position, if available.
pa-heuristic/src/heuristic.rs:115
Method
layer_with_hint
(&self, pos: Pos, hint: Self::Hint)
pa-heuristic/src/heuristic/csh.rs:356
Method
layer_with_hint
(&self, pos: Pos, hint: Self::Hint)
pa-heuristic/src/heuristic/wrappers.rs:114
Method
lcs
()
pa-affine-types/src/cost_model.rs:112
Method
left
(self, d: i32)
pa-vis/src/canvas.rs:41
Method
linear
(sub: Cost, indel: Cost)
pa-affine-types/src/cost_model.rs:118
Method
linear_affine
(sub: Cost, indel: Cost, open: Cost, extend: Cost)
pa-affine-types/src/cost_model.rs:146
Method
linear_asymmetric
(sub: Cost, ins: Cost, del: Cost)
pa-affine-types/src/cost_model.rs:121
Method
linear_cost_in_direction
(&self, d: i32)
pa-affine-types/src/cost_model.rs:435
Function
local_doubling
()
pa-base-algos/src/nw.rs:1123
Function
local_doubling
()
astarpa2/src/tests.rs:123
Function
log
(s: &str)
pa-web/src/wasm.rs:25
Function
lookup_seeds_in_qgram_hashmap
(a: Seq, b: Seq, k: I)
pa-heuristic/benches/matches_old.rs:107
Function
lookup_suffixes_in_qgram_hashmap
(a: Seq, b: Seq, k: I)
pa-heuristic/benches/matches_old.rs:122
Method
m_affine_mut
(&mut self, layer_idx: usize)
pa-base-algos/src/front.rs:287
Function
main
()
astarpa-next/src/bin/path_pruning.rs:53
Function
main
()
astarpa-next/examples/path-pruning.rs:12
Function
main
()
pa-bin/src/main.rs:9
Function
main
()
pa-bin/examples/nanosim_to_seq.rs:34
Function
main
()
pa-bin/examples/thesis-cover.rs:17
Function
main
()
pa-bin/examples/path-tracing.rs:13
Function
main
()
pa-bin/examples/random_distance.rs:19
Function
main
()
pa-bin/examples/readme-astarpa2.rs:8
Function
main
()
pa-bin/examples/readme-videos.rs:18
Function
main
()
pa-bin/examples/fuzz.rs:22
Function
main
()
pa-bin/examples/aligners_vis.rs:15
Function
main
()
pa-bin/examples/no-matches.rs:8
Function
main
()
pa-bin/examples/domains.rs:12
Function
main
()
pa-bin/examples/astarpa2.rs:1
Function
main
()
pa-bin/examples/local-doubling.rs:48
Function
main
()
pa-bin/examples/slides-videos.rs:11
Function
main
()
pa-bin/examples/path-tracing-affine.rs:13
Function
main
()
pa-bin/examples/affine-gapcost.rs:8
Function
main
()
pa-bin/examples/txt_to_seq.rs:16
Function
main
()
pa-bin/examples/affine_scaling.rs:7
Function
main
()
pa-bin/examples/readme-layers.rs:10
Function
main
()
pa-bin/examples/astarpa-figures/comparison.rs:10
Function
main
()
pa-bin/examples/astarpa-figures/no-matches.rs:8
Function
main
()
pa-bin/examples/astarpa-figures/layers.rs:8
Function
main
()
pa-bin/examples/astarpa-figures/limitations.rs:11
Function
main
()
pa-bin/examples/astarpa-figures/intro.rs:16
Function
main
()
pa-bin/examples/astarpa2-figures/prepruning.rs:11
Function
main
()
pa-bin/examples/astarpa2-figures/trace.rs:6
Function
main
()
pa-bin/examples/astarpa2-figures/comparison.rs:17
Function
main
()
pa-bin/examples/astarpa2-figures/ranges.rs:6
Function
main
()
pa-bin/examples/astarpa2-figures/layers.rs:8
Function
main
()
pa-bin/examples/astarpa2-figures/doubling.rs:6
Function
main
()
pa-bin/examples/astarpa2-figures/simd.rs:9
Function
main
()
pa-bin/examples/astarpa2-figures/intro.rs:17
Function
main
astarpa-c/example.cpp:7
Function
main
astarpa-c/example.c:7
Method
match_key
(m: &Match)
pa-heuristic/src/matches.rs:249
Method
matches
(&self)
pa-heuristic/src/heuristic.rs:168
Method
matches
(&self)
pa-heuristic/src/heuristic/csh.rs:568
Method
matches
(&self)
pa-heuristic/src/heuristic/wrappers.rs:65
Method
matches
(&self)
pa-heuristic/src/heuristic/bruteforce_gcsh.rs:180
Method
max_del_for_cost_open_only
(&self, s: Cost)
pa-affine-types/src/cost_model.rs:418
Method
max_edge_cost
(cm: &AffineCost<N>)
pa-base-algos/src/edit_graph.rs:63
Method
max_ins_for_cost_open_only
(&self, s: Cost)
pa-affine-types/src/cost_model.rs:403
Method
max_matches
(&self)
pa-heuristic/src/matches.rs:380
Function
n100000_am_in_b
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:344
Function
n100000_am_in_b_dedup
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:365
Function
n100000_inexact_hash
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:323
Function
n10000_a_in_bm
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:400
Function
n10000_am_in_b
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:337
Function
n10000_am_in_b_dedup
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:358
Function
n10000_b_in_am
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:379
Function
n10000_bm_in_a
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:421
Function
n10000_inexact_hash
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:316
Function
n100_a_in_bm
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:393
Function
n100_am_in_b
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:330
Function
n100_am_in_b_dedup
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:351
Function
n100_b_in_am
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:372
Function
n100_bm_in_a
(bench: &mut Bencher)
pa-heuristic/benches/matches_inexact.rs:414
Method
name
(&self)
astarpa-next/src/path_pruning.rs:71
Method
name
(&self)
pa-heuristic/src/heuristic/sh.rs:29
Method
name
(&self)
pa-heuristic/src/heuristic/csh.rs:147
Method
name
(&self)
pa-heuristic/src/heuristic/distances.rs:30
Method
name
(&self)
pa-heuristic/src/heuristic/wrappers.rs:23
Method
new
(a: Seq<'s>, b: Seq<'s>)
astarpa-next/src/compressed_history.rs:112
Method
new
Create a new front for the given range, using the given buffer sizes.
pa-base-algos/src/front.rs:95
Method
new
( cm: AffineCost<N>, use_gap_cost_heuristic: GapCostHeuristic, h: H, dc: bool,
pa-base-algos/src/dt.rs:100
Method
new
( &self, trace: bool, a: Seq<'a>, b: Seq<'a>, cm: &'a AffineCost<0>,
pa-base-algos/src/nw/bitpacking.rs:274
Method
new
(j_range: JRange)
pa-base-algos/src/nw/affine.rs:78
Method
new
(len: usize)
pa-web/src/interaction.rs:34
Method
new
(w: usize, h: usize, title: &str)
pa-vis/src/sdl.rs:41
Method
new
(style: VisualizerStyle)
pa-vis/src/visualizer.rs:453
Method
new
(i: I, j: I, layer: Layer)
pa-affine-types/src/lib.rs:21
Method
new
( sub: Option<Cost>, ins: Option<Cost>, del: Option<Cost>, affine: [AffineLaye
pa-affine-types/src/cost_model.rs:230
Method
new
Build the contours from a set of arrows. NOTE: Arrows must be reverse sorted by start.
pa-heuristic/src/contour.rs:94
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