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Martinsos
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edlib
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
http://martinsos.github.io/edlib
MIT License
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Return starting position of alignment (but no alignment path)
#29
Martinsos
closed
9 years ago
1
Improve cigar format
#28
Martinsos
closed
8 years ago
1
Memory leak
#27
Martinsos
closed
10 years ago
1
Reduce memory consumption for NW alignment
#26
Martinsos
closed
8 years ago
1
Finding alignment for HW throws segmentation fault
#25
Martinsos
closed
10 years ago
2
Add support in aligner for printing multiple positions
#24
Martinsos
closed
8 years ago
0
Add option to chose number of positions that will be returned
#23
Martinsos
closed
8 years ago
1
Better explain how fast is EDLIB for specific cases, especially when finding alignment path
#22
Martinsos
closed
8 years ago
0
Update comparison with Landau Vishkin
#21
Martinsos
closed
8 years ago
1
Optimize adjusting of last block in NW
#20
Martinsos
closed
8 years ago
1
Combine Myers with Landau Vishkin
#19
Martinsos
opened
10 years ago
1
Orient blocks parallel with target (horizontally)
#18
Martinsos
opened
10 years ago
0
Please, add link of the paper to README.md
#17
mariokostelac
closed
10 years ago
1
Compare with myers code from 1998
#16
Martinsos
closed
10 years ago
2
Test speed of alignment
#15
Martinsos
closed
10 years ago
1
Remove padding from target in NW
#14
Martinsos
closed
10 years ago
1
Speed up calculation of Peq
#13
Martinsos
opened
10 years ago
1
Compare with Ukkonen implementation from SNAP
#12
Martinsos
closed
10 years ago
2
Different comparison with SSW
#11
Martinsos
closed
10 years ago
1
Check for memory leaks
#10
Martinsos
closed
10 years ago
1
Do profiling
#9
Martinsos
closed
10 years ago
2
Improve block calculation
#8
Martinsos
closed
8 years ago
3
Finding alignment
#7
Martinsos
closed
10 years ago
7
Try using Myers to obtain most common protein for some protein
#6
Martinsos
closed
8 years ago
0
Investigate if SSE/AVX could bring speedup
#5
Martinsos
closed
8 years ago
5
Usage of parameter k in aligner
#4
Martinsos
closed
10 years ago
2
Create aligner
#3
Martinsos
closed
10 years ago
1
Improve Ukkonen boundaries
#2
Martinsos
opened
10 years ago
2
Compare with some other aligning method (maybe SSW?). Test on nucleotide data.
#1
Martinsos
closed
10 years ago
1
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