phac-nml biohansel issues

phac-nml / biohansel

Rapidly subtype microbial genomes using single-nucleotide variant (SNV) subtyping schemes

Apache License 2.0

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issues

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Patch release v2.6.1

#146 peterk87 closed 3 years ago
0
Patch fix for Bioconda

#145 peterk87 closed 3 years ago
0
Release v2.6.0

#144 peterk87 closed 3 years ago
0
Release v2.6.0

#143 peterk87 closed 3 years ago
0
Purpose of max kmer frequency?

#142 peterk87 opened 3 years ago
5
Add bump2version config for easy version updating

#141 peterk87 closed 3 years ago
0
Covid19

#140 jrober84 closed 3 years ago
1
Update pypi_deploy.yml

#139 peterk87 closed 3 years ago
0
Sync master with the development branch as releases were done from this branch

#138 kbessonov1984 closed 3 years ago
0
Github Action for CI

#137 peterk87 closed 3 years ago
0
PyPI deploy action

#136 peterk87 closed 3 years ago
0
Display warning to user when k-mer length is below specific threshold

#135 glabbe opened 3 years ago
0
Decouple schemes from codebase and put in separate schemes repo

#134 glabbe opened 3 years ago
0
Need to add scheme and scheme version to tech results output

#133 glabbe opened 3 years ago
0
Readthedocs

#132 glabbe closed 3 years ago
1
Update to S. Typhi scheme and metadata

#131 glabbe closed 3 years ago
0
Update const.py

#130 glabbe closed 3 years ago
0
Update to S. Typhi scheme and metadata

#129 glabbe closed 3 years ago
0
Update needed for S. Typhi scheme

#128 glabbe closed 3 years ago
2
Glabbe patch 1 1

#127 glabbe closed 3 years ago
0
IRIDA-Biohansel: Adding our own schema for other Species

#126 ajkarloss opened 3 years ago
3
Feature Add: Toggle to run all schemes on a sample and report best matching scheme

#125 jrober84 opened 3 years ago
0
Update author list according to manuscript

#124 glabbe closed 4 years ago
0
Update author list according to manuscript

#123 glabbe closed 4 years ago
2
Updating QC message from "unconfident" to "inconclusive"

#122 glabbe closed 4 years ago
0
Release v2.4.0

#121 peterk87 closed 4 years ago
5
Fix metadata NA value issue

#120 peterk87 closed 4 years ago
0
Prepare release v2.4.0

#119 peterk87 closed 4 years ago
2
Faster reverse complement using translation table

#118 peterk87 closed 4 years ago
1
Fix author list in README

#117 peterk87 closed 4 years ago
1
Add #N/A in subtype field of results when no subtype is found

#116 glabbe closed 4 years ago
3
Adds #N/A in subtype field of results when no subtype is found

#115 glabbe closed 4 years ago
5
Update default coverage values and clarify help statement

#114 glabbe closed 4 years ago
0
Output 'NA' as subtype when no subtype found

#113 glabbe closed 4 years ago
2
Output "NA" as subtype for samples that fail QC with no subtype result or no targets found

#112 glabbe closed 4 years ago
11
Readme Update

#111 DarianHole closed 4 years ago
0
Rename tb_speciation to tb_lineage

#110 DarianHole closed 4 years ago
0
Fix to include metadata when installing with pip/conda

#109 DarianHole closed 4 years ago
3
metadata file type

#108 dankein closed 4 years ago
4
Change tb_speciation to tb_lineage?

#107 dankein closed 4 years ago
4
Fix deployment to PyPI

#106 peterk87 closed 5 years ago
0
Try fix #104 deploy.on.repo travis ci

#105 peterk87 closed 5 years ago
0
Skipping a deployment with the pypi provider because this repo's name does not match one specified in .travis.yml's deploy.on.repo: phac-nml/bio_hansel

#104 peterk87 closed 5 years ago
0
Update to TB_Speciation and Typhi subtyping schemes

#103 DarianHole closed 5 years ago
0
Update schemes for tb_speciation and typhi, including metadata

#102 glabbe closed 5 years ago
3
Raise MAX_KMER_FREQUENCY Value to 10,000

#101 glabbe closed 4 years ago
1
Fix #98 QC check for mixed subtypes

#100 peterk87 closed 5 years ago
2
Semicolons in version numbers for some schemes

#99 peterk87 closed 5 years ago
1
QC module not failing samples where positive and negative kmers are detected for the same genome position

#98 glabbe closed 5 years ago
1
Deploy to PyPI on release

#97 Takadonet closed 5 years ago
0