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cfe-lab
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MiCall
Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C
https://cfe-lab.github.io/MiCall
GNU Affero General Public License v3.0
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Bump requests from 2.31.0 to 2.32.0
#1101
dependabot[bot]
closed
6 months ago
1
Bump pytest from 8.2.0 to 8.2.1
#1100
dependabot[bot]
closed
6 months ago
0
Bump rexml from 3.2.6 to 3.2.8 in /docs
#1099
dependabot[bot]
closed
6 months ago
0
Bump matplotlib from 3.7.3 to 3.9.0
#1098
dependabot[bot]
closed
4 months ago
1
Add Stitcher documentation
#1097
Donaim
closed
6 months ago
1
Fix theme version syntax in the docs configuration
#1096
Donaim
closed
6 months ago
0
Bump nokogiri from 1.16.2 to 1.16.5 in /docs
#1095
dependabot[bot]
closed
6 months ago
0
Pin docs version
#1094
Donaim
closed
6 months ago
0
Small stitcher improvements
#1093
Donaim
closed
6 months ago
0
micall_docker: do not spawn subprocesses for n=1
#1092
Donaim
closed
6 months ago
1
Small stitcher improvements
#1091
Donaim
closed
6 months ago
0
Bump coverage from 7.5.0 to 7.5.1
#1090
dependabot[bot]
closed
6 months ago
1
Add documentation describing the new stitcher.
#1089
Donaim
closed
6 months ago
0
Bump pytest from 8.1.1 to 8.2.0
#1088
dependabot[bot]
closed
7 months ago
0
Remove old stitching code.
#1087
Donaim
opened
7 months ago
0
Refactor the visualizer to make it at least somewhat readable.
#1086
Donaim
opened
7 months ago
0
Write `conseq_ins_csv` to the output directory
#1085
Donaim
opened
7 months ago
0
Check that output files exist in microtest.py
#1084
Donaim
closed
7 months ago
1
Bump mypy from 1.9.0 to 1.10.0
#1083
dependabot[bot]
closed
7 months ago
3
Fix arguments order in microtest.py
#1082
Donaim
closed
7 months ago
0
Split conseq_csv into stitched_ and unstitched_ versions
#1081
Donaim
closed
7 months ago
0
Split CI config
#1080
Donaim
closed
7 months ago
0
Bump pysam from 0.22.0 to 0.22.1
#1079
dependabot[bot]
closed
7 months ago
0
Bump coverage from 7.4.4 to 7.5.0
#1078
dependabot[bot]
closed
7 months ago
1
Bump reportlab from 4.1.0 to 4.2.0
#1077
dependabot[bot]
closed
7 months ago
0
Bump cutadapt from 4.7 to 4.8
#1076
dependabot[bot]
closed
7 months ago
0
Handle floating point numbers in `update_qai.py`
#1075
Donaim
closed
7 months ago
0
Bump pandas from 2.0.2 to 2.2.2
#1074
dependabot[bot]
closed
2 months ago
1
Bump python-levenshtein from 0.25.0 to 0.25.1
#1073
dependabot[bot]
closed
7 months ago
0
Bump matplotlib from 3.7.3 to 3.8.4
#1072
dependabot[bot]
closed
6 months ago
1
Bump scipy from 1.10.1 to 1.13.0
#1071
dependabot[bot]
closed
6 months ago
1
Bump mappy from 2.17 to 2.28
#1070
dependabot[bot]
closed
1 month ago
3
Bump aligntools to v1.0.2
#1069
Donaim
closed
8 months ago
1
Use aligntools
#1068
Donaim
closed
8 months ago
1
Move CigarActions definition to cigar_tools.py
#1067
Donaim
closed
8 months ago
1
Bump cutadapt from 3.7 to 4.7
#1066
dependabot[bot]
closed
8 months ago
1
Bump coverage from 7.4.3 to 7.4.4
#1065
dependabot[bot]
closed
8 months ago
1
Bump github-pages and jekyll in /docs
#1064
dependabot[bot]
closed
8 months ago
5
Bump mappy from 2.17 to 2.27
#1063
dependabot[bot]
closed
8 months ago
1
Bump biopython from 1.81 to 1.83
#1062
dependabot[bot]
closed
8 months ago
1
Bump seaborn from 0.12.2 to 0.13.2
#1061
dependabot[bot]
closed
8 months ago
2
Bump matplotlib from 3.7.3 to 3.8.3
#1060
dependabot[bot]
closed
7 months ago
1
Bump mypy from 1.7.0 to 1.9.0
#1059
dependabot[bot]
closed
8 months ago
2
Bump reportlab from 4.0.4 to 4.1.0
#1058
dependabot[bot]
closed
8 months ago
4
Bump pysam from 0.21.0 to 0.22.0
#1057
dependabot[bot]
closed
8 months ago
2
Bump commonmarker from 0.23.9 to 0.23.10 in /docs
#1056
dependabot[bot]
closed
8 months ago
2
Add flake8 support
#1055
Donaim
closed
8 months ago
1
Dependabot/bundler/docs/nokogiri 1.16.2
#1054
Donaim
closed
8 months ago
3
Switch singularity to ubuntu
#1053
Donaim
closed
8 months ago
1
Bump python-levenshtein from 0.21.1 to 0.25.0
#1052
dependabot[bot]
closed
8 months ago
1
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