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alexsweeten
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snacc
Normalized Compression Distance for Inferring Microbial Phylogenies
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file opening in python
#41
wilcas
closed
6 years ago
0
Parse a multiple sequence alignment file
#40
alexsweeten
closed
5 years ago
1
Order of concatenating sequences
#39
alexsweeten
closed
6 years ago
0
try some other DNA compression algorithms
#38
yao00
closed
6 years ago
1
Write compressed
#37
wilcas
closed
6 years ago
0
Reverse comp and concat
#36
tamario
closed
6 years ago
0
Snappy
#35
JanMoat
closed
6 years ago
0
Look at compression using CRAM
#34
alexsweeten
closed
6 years ago
1
Cli work
#33
wilcas
closed
6 years ago
0
Merge cli with pairwise_distance
#32
alexsweeten
closed
6 years ago
0
Parallelize
#31
wilcas
closed
6 years ago
0
Investigate effects of skewing NCD output
#30
alexsweeten
closed
5 years ago
0
Add lz4 compression
#29
souravsingh
closed
6 years ago
0
Add Burrows-Wheeler Transformation
#28
souravsingh
closed
6 years ago
0
Write compressed files
#27
alexsweeten
closed
6 years ago
1
Apply all future compression algorithms into a command line argument.
#26
alexsweeten
closed
6 years ago
2
Apply Burrows Wheeler Transform as a pre-processing step
#25
alexsweeten
closed
6 years ago
3
Add zlib compressor parameter
#24
souravsingh
closed
6 years ago
0
Iss11 bzip2
#23
tamario
closed
6 years ago
0
Add compressor parameter to compressed_size
#22
souravsingh
closed
6 years ago
2
adding benchmark issue with filepaths
#21
wilcas
closed
6 years ago
0
Add bz2 and Zlib algorithms
#20
souravsingh
closed
6 years ago
0
Output log file
#19
alexsweeten
closed
6 years ago
2
add gzip
#18
mitchso
closed
6 years ago
0
function to run GenCompress with executable in bin
#17
wilcas
closed
6 years ago
0
Benchmark your implementations!
#16
alexsweeten
closed
5 years ago
0
Script to compute all NCD values for all files in a folder
#15
alexsweeten
closed
6 years ago
1
Click CLI implementation
#14
Benjamin-Lee
closed
6 years ago
0
Test a whole slew of clustering algorithms
#13
alexsweeten
closed
5 years ago
2
Separation of concerns?
#12
Benjamin-Lee
closed
6 years ago
0
Test a whole slew of compression algorithms
#11
alexsweeten
closed
5 years ago
5
Packaging the code for use
#10
souravsingh
opened
6 years ago
4
Setup.py file
#9
Benjamin-Lee
closed
6 years ago
6
Investigate GenCompress
#8
alexsweeten
closed
6 years ago
3
Paralellize compression
#7
alexsweeten
closed
6 years ago
5
Parse FASTA file information
#6
alexsweeten
closed
6 years ago
8
Work with protein data
#5
alexsweeten
closed
6 years ago
0
Get sequence reverse compliment
#4
alexsweeten
closed
6 years ago
2
Introductions & Initial Setup
#3
alexsweeten
closed
6 years ago
5
Investigate use of Snappy for compression
#2
souravsingh
closed
6 years ago
2
Using UMAP and Bokeh for the project
#1
souravsingh
closed
6 years ago
6
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