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phac-nml
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biohansel
Rapidly subtype microbial genomes using single-nucleotide variant (SNV) subtyping schemes
Apache License 2.0
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Shorten QC messages - remove repeated terms
#46
glabbe
closed
6 years ago
2
Snv schemescript- first iteration
#45
gcttong
closed
6 years ago
1
tag v2.0.0 release
#44
corburn
closed
6 years ago
1
SNV subtyping scheme creation tool
#43
gcttong
closed
3 years ago
2
Allow merging of optional scheme subtype metadata table entries into results
#42
peterk87
closed
6 years ago
2
Problem with installation of bio_hansel because of pyahocorasick dependency
#41
gcttong
closed
6 years ago
1
Fix issue #39 - `zcat < file`
#40
peterk87
closed
6 years ago
0
Cannot parse gzipped seq files on Mac OSX since zcat doesn't work the same as under Linux
#39
peterk87
closed
6 years ago
0
Add sample input grouping based on the regex `_(R1|R2)` to support Illumina instrument output
#38
peterk87
closed
5 years ago
1
Remove BLAST/Jellyfish dependencies for Aho-Corasick only run mode
#37
peterk87
closed
6 years ago
0
Fixes #53 `ValueError: No objects to concatenate` when no tile results are produced
#36
peterk87
closed
6 years ago
0
Failing on custom TB dataset
#35
Takadonet
closed
6 years ago
4
Updating SE 0.8.0, Citation + Logo Fix, Updating Tests
#34
mgopez
closed
6 years ago
2
New Release Needed
#33
mgopez
closed
6 years ago
2
Adding Contributors to the Citations
#32
mgopez
closed
6 years ago
0
Missing Column Fix & Missing Tiles Test for Mixed Subtypes
#31
mgopez
closed
6 years ago
1
Fixes and QoL Additions
#30
mgopez
closed
6 years ago
4
Remove NCBI BLAST+ and Jellyfish dependencies
#29
peterk87
closed
6 years ago
1
Fix for Non Present Subtypes
#28
mgopez
closed
6 years ago
2
Unconfident QC Check not behaving as expected
#27
mgopez
closed
6 years ago
1
Adding `astype` checking.
#26
mgopez
closed
6 years ago
1
Error in QC join function
#25
mgopez
closed
6 years ago
1
New Release
#24
mgopez
closed
6 years ago
1
Add Aho-Corasick run mode for faster subtyping
#23
peterk87
closed
6 years ago
0
Fix for #21
#22
mgopez
closed
6 years ago
0
Exception when running QC functions against FASTA `KeyError: 'is_kmer_freq_okay'`
#21
peterk87
closed
6 years ago
1
Updating ReadMe and SEQ Column bugfix
#20
mgopez
closed
6 years ago
1
#15, #18: Automating K-mer Min Module
#19
mgopez
closed
6 years ago
3
Raise MAX_KMER Value to 1000
#18
mgopez
closed
6 years ago
1
#13, #14: Quality Checking Module & Technician's Output
#17
mgopez
closed
6 years ago
3
Add downsampling to workflow
#16
Takadonet
closed
6 years ago
1
Automate determining coverage minimum and maximum coverage
#15
Takadonet
opened
6 years ago
4
Quality assessment module
#14
Takadonet
closed
6 years ago
0
new technician output file format
#13
Takadonet
closed
6 years ago
0
Fixes for #6, #7 and #11
#12
mgopez
closed
6 years ago
1
Update Enteritidis scheme to v0.7.0
#11
peterk87
closed
6 years ago
0
Fix inconsistent subtype function
#10
peterk87
closed
6 years ago
3
Install Instructions Changed
#9
mgopez
closed
6 years ago
1
README Adding Conda Install
#8
mgopez
closed
6 years ago
0
Remove unnecessary columns from FASTA detailed output
#7
peterk87
closed
6 years ago
7
Change field names to more intuitive ones
#6
peterk87
closed
6 years ago
2
Fixes for #3 and #4
#5
peterk87
closed
6 years ago
0
provide scheme number in output file (nt)
#4
Takadonet
closed
6 years ago
0
show usage statement when running hansel no arguments (nt)
#3
Takadonet
closed
6 years ago
0
Created Travis CI testing for the repository.
#2
mgopez
closed
6 years ago
4
Updating read me's test results and help command output.
#1
mgopez
closed
7 years ago
1
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