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dermestid
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bold-phylodiv-scripts
Scripts to calculate phylodiversity and its distribution from BOLD DNA barcode data.
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Optional command line arguments broken
#42
dermestid
closed
3 years ago
0
This code is barbaric
#41
dermestid
closed
3 years ago
1
CSV output includes location data
#40
dermestid
closed
3 years ago
0
Repetitive code for managing data files
#39
dermestid
closed
3 years ago
0
Merge location-related functions into one class
#38
dermestid
closed
3 years ago
0
Readability: less use of different words or variable names for the same concept
#37
dermestid
closed
3 years ago
0
Move some variable declarations to a new file
#36
dermestid
closed
3 years ago
0
geo_divide out of date with taxsets_data_file columns
#35
dermestid
closed
3 years ago
1
Include location data in CSV output
#34
dermestid
closed
3 years ago
0
Writing of taxsets_data_file is broken
#33
dermestid
closed
3 years ago
1
Automate replication
#32
dermestid
closed
3 years ago
0
Automate replication
#31
dermestid
closed
3 years ago
0
Writes tree stats to CSV file
#30
dermestid
closed
3 years ago
0
Reduce verbosity of console output
#29
dermestid
closed
3 years ago
0
Allow early termination of long downloads
#28
dermestid
opened
3 years ago
1
Write tree lengths and sampling parameters to CSV file
#27
dermestid
closed
3 years ago
0
Branch lengths correctly counted
#26
dermestid
closed
3 years ago
0
Error: not all branch lengths are counted
#25
dermestid
closed
3 years ago
1
Small taxsets are not sampled
#24
dermestid
closed
3 years ago
1
Error: geo_divisions is used to name trees
#23
dermestid
closed
3 years ago
0
Fix default parameters
#22
dermestid
closed
3 years ago
0
Fix default parameters
#21
dermestid
closed
3 years ago
0
Files cluttered
#20
dermestid
closed
3 years ago
0
Files cluttered
#19
dermestid
closed
3 years ago
0
Fixed return of make_trees and removed some debug text
#18
dermestid
closed
3 years ago
0
Temp files not removed
#17
dermestid
closed
3 years ago
1
paup_commands_template.txt is no longer used
#16
dermestid
closed
3 years ago
0
paup_commands_template.txt is no longer used
#15
dermestid
closed
3 years ago
0
Temp files not removed
#14
dermestid
closed
3 years ago
0
Major program structure changes and allows different geographical divisions
#13
dermestid
closed
3 years ago
0
Single clustal input file
#12
dermestid
closed
3 years ago
2
Make single sequence and taxset database
#11
dermestid
closed
3 years ago
1
Grid size passed as script parameter
#10
dermestid
closed
3 years ago
1
Coordinate grid size should be a command line parameter
#9
dermestid
closed
3 years ago
0
clearup
#8
dermestid
closed
3 years ago
0
move PAUP script to new file
#7
dermestid
closed
3 years ago
0
move PAUP script to new file
#6
dermestid
closed
3 years ago
0
Sampling through PAUP script
#5
dermestid
closed
3 years ago
0
Cache downloaded sequences
#4
dermestid
closed
3 years ago
1
move PAUP script to new file
#3
dermestid
closed
3 years ago
1
test-branch-2
#2
dermestid
closed
3 years ago
0
Readme changes
#1
dermestid
closed
3 years ago
0
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