amnh PCG issues - Githubissues

amnh / PCG

𝙋𝙝𝙮𝙡𝙤𝙜𝙚𝙣𝙚𝙩𝙞𝙘 𝘾𝙤𝙢𝙥𝙤𝙣𝙚𝙣𝙩 𝙂𝙧𝙖𝙥𝙝 ⸺ Haskell program and libraries for general phylogenetic graph search

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Research and replace current node decorations with extensible records

#67 recursion-ninja opened 6 years ago
0
C/C++ space leaks in memoized TCM

#66 recursion-ninja closed 6 years ago
1
Add graph component refinement algorithms

#65 recursion-ninja opened 6 years ago
0
Implied alignment implementation

#64 recursion-ninja closed 4 years ago
6
Expand the memoized TCM to accept 3 character elements in addition 2 character elements.

#63 recursion-ninja closed 6 years ago
1
Create little-endian BitVector

#62 recursion-ninja closed 6 years ago
5
Add "missing" Character Blocks in Character Sequence

#61 recursion-ninja closed 6 years ago
2
Deal with gaps as first char on 2D

#60 recursion-ninja opened 7 years ago
0
Add "Total Edge Cost" calculation

#59 recursion-ninja closed 6 years ago
2
Add metadata rendering for the character sequence

#58 recursion-ninja closed 6 years ago
2
ExtendedNatural multiplication is not associative

#57 recursion-ninja closed 7 years ago
1
Create recursively defined average character length field

#56 recursion-ninja closed 7 years ago
0
Add "single-assignment" field to dynamic characters

#55 recursion-ninja closed 6 years ago
4
The evaluation model repeats computationally expensive work.

#54 recursion-ninja closed 6 years ago
1
Segfault while running with multiple threads...?

#53 recursion-ninja closed 7 years ago
2
Labeling issue with DOT output and the Build command when reading eNewick as input.

#52 recursion-ninja closed 7 years ago
1
Investigate why trailing whitespace is causing a parse error.

#51 recursion-ninja closed 7 years ago
1
Incorrect network cost quantification

#50 recursion-ninja closed 7 years ago
1
Fix linking error on OSX

#49 recursion-ninja closed 7 years ago
2
Create abstraction layer for syntactic parser

#48 recursion-ninja closed 7 years ago
1
Pretty print output

#47 ima-hima closed 6 years ago
1
Goloboff Sankoff shortcuts

#46 ima-hima closed 6 years ago
4
Add tests for missing data

#45 ima-hima closed 6 years ago
4
Experiment with "Trees That Grow" technique(s)

#44 recursion-ninja closed 4 years ago
1
Use compact regions for our search state.

#43 recursion-ninja closed 6 years ago
2
Add Goloboff's Sankoff

#42 ima-hima opened 7 years ago
1
Use DOT files as acceptable graph input

#41 recursion-ninja closed 7 years ago
3
Robustly handle multiple root nodes

#40 recursion-ninja closed 7 years ago
1
Create a metadata Character Sequence with character summary.

#39 recursion-ninja closed 6 years ago
1
Network costs are *WAY* too high!

#38 recursion-ninja closed 7 years ago
1
Publish implied alignment algorithm application on phylogenetic networks

#37 recursion-ninja closed 6 years ago
3
Publish our file formats

#36 recursion-ninja closed 3 years ago
1
Publish our method of generating the "resolution cache" for all rootings in a Phylogenetic Network

#35 recursion-ninja closed 6 years ago
2
Publish sequential alignment heuristic for dynamic characters

#34 recursion-ninja closed 4 years ago
1
Publish our method for Phylogenetic Network generalizations SPR/TBR/NNI operations

#33 recursion-ninja opened 7 years ago
0
Publish definition and efficient scoring of "Phylogentic Network"

#32 recursion-ninja opened 7 years ago
0
Publish improved implied aligment algorithm on binary trees

#31 recursion-ninja closed 4 years ago
2
Dynamic character rerooting logic fails on phylogenetic networks

#30 recursion-ninja closed 7 years ago
2
C DO code maintainablity issues

#29 ima-hima opened 7 years ago
6
2D affine segfaults

#28 ima-hima closed 7 years ago
0
Change ints in Memoized CM to uints

#27 ima-hima closed 6 years ago
1
Refactor memoized CM to switch from dcElement to packedChar

#26 ima-hima closed 7 years ago
1
Implement & integrate Ukkonen alignment matrix in Haskell

#25 recursion-ninja closed 7 years ago
1
Integrate C memoized TCM with Haskell DO alignment

#24 recursion-ninja closed 7 years ago
2
Integrate C DO 3D code from POY code base

#23 recursion-ninja opened 7 years ago
2
Integrate C DO 2D Affine code from POY code base

#22 recursion-ninja closed 7 years ago
1
Implement & integrate all dynamic character pairwise alignment techniques

#21 recursion-ninja opened 7 years ago
0
Move memoized cost matrix to its own FFI

#20 recursion-ninja closed 7 years ago
0
Test and refactor memoized cost matrix code

#19 recursion-ninja closed 7 years ago
1
Create more contextualized alignment type in result

#18 recursion-ninja closed 4 years ago
2

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