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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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Add "MiCall at BC CfE" page to docs
#1153
Donaim
closed
2 days ago
0
Bump pandas from 2.0.2 to 2.2.3
#1152
dependabot[bot]
opened
1 week ago
0
Ensure that collated subdirectories are archived deterministically
#1150
Donaim
opened
1 month ago
2
Bump numpy from 1.24.3 to 2.1.1
#1149
dependabot[bot]
opened
1 month ago
0
Bump rexml from 3.2.8 to 3.3.6 in /docs
#1148
dependabot[bot]
closed
1 week ago
0
Bump scipy from 1.10.1 to 1.14.1
#1147
dependabot[bot]
opened
1 month ago
0
Bump numpy from 1.24.3 to 2.1.0
#1146
dependabot[bot]
closed
1 month ago
1
Bump matplotlib from 3.7.3 to 3.9.2
#1145
dependabot[bot]
opened
1 month ago
0
Support new format of MiSeq sample sheets
#1144
Donaim
opened
1 month ago
1
Bump matplotlib from 3.7.3 to 3.9.1.post1
#1143
dependabot[bot]
closed
1 month ago
1
Bump jekyll from 3.9.5 to 3.10.0 in /docs
#1142
dependabot[bot]
closed
1 week ago
1
Bump github-pages from 231 to 232 in /docs
#1141
dependabot[bot]
closed
1 week ago
2
Fix retry logic in `qai_upload.py`
#1140
Donaim
opened
1 month ago
1
Bump coverage from 7.5.3 to 7.6.1
#1139
dependabot[bot]
opened
2 months ago
0
Bump flake8 from 7.0.0 to 7.1.1
#1138
dependabot[bot]
opened
2 months ago
0
Bump rexml from 3.2.8 to 3.3.3 in /docs
#1137
dependabot[bot]
closed
1 month ago
1
Bump numpy from 1.24.3 to 2.0.1
#1136
dependabot[bot]
closed
1 month ago
1
Pin GitHub Actions to digests
#1135
jhrozek
opened
2 months ago
0
Bump coverage from 7.5.3 to 7.6.0
#1134
dependabot[bot]
closed
2 months ago
1
Initial v7.17.1 changes
#1133
Donaim
closed
1 week ago
0
Bump matplotlib from 3.7.3 to 3.9.1
#1132
dependabot[bot]
closed
1 month ago
1
Bump openpyxl from 3.1.3 to 3.1.5
#1131
dependabot[bot]
opened
3 months ago
0
Save git version and history in Singularity container
#1130
Donaim
closed
2 months ago
2
Copy SampleSheetOverrides file in release_test_setup.py
#1129
Donaim
closed
2 months ago
0
Bump scipy from 1.10.1 to 1.14.0
#1128
dependabot[bot]
closed
1 month ago
1
Bump drawsvg from 2.3.0 to 2.4.0
#1127
dependabot[bot]
opened
3 months ago
0
Bump coverage from 7.5.3 to 7.5.4
#1126
dependabot[bot]
closed
2 months ago
1
Bump cutadapt from 4.8 to 4.9
#1125
dependabot[bot]
opened
3 months ago
0
Fix names of dropped contigs in contig stitcher logs
#1124
Donaim
closed
2 months ago
0
Bump numpy from 1.24.3 to 2.0.0
#1123
dependabot[bot]
closed
2 months ago
1
Bump flake8 from 7.0.0 to 7.1.0
#1122
dependabot[bot]
closed
2 months ago
1
Bump openpyxl from 3.1.3 to 3.1.4
#1121
dependabot[bot]
closed
3 months ago
1
v7.17.0 todo items
#1120
Donaim
closed
1 week ago
0
Fix the name of the debug_debug.sam to prevent overrides
#1119
Donaim
closed
2 months ago
0
Use unstitched_cascade.csv for proviral pipeline
#1118
Donaim
closed
3 months ago
0
Minimize denovo.py
#1117
Donaim
opened
3 months ago
0
Bump gprof2dot from 2022.7.29 to 2024.6.6
#1116
dependabot[bot]
closed
3 months ago
0
Bump pytest from 8.2.1 to 8.2.2
#1115
dependabot[bot]
closed
3 months ago
0
Fix stitcher plot labels
#1114
Donaim
closed
4 months ago
0
Bump openpyxl from 3.1.2 to 3.1.3
#1113
dependabot[bot]
closed
3 months ago
1
Bump requests from 2.32.1 to 2.32.3
#1112
dependabot[bot]
closed
3 months ago
1
Bump coverage from 7.5.2 to 7.5.3
#1111
dependabot[bot]
closed
3 months ago
2
Bump aligntools to v1.0.3
#1110
Donaim
closed
4 months ago
0
Small improvements to release compare script
#1109
Donaim
closed
4 months ago
0
Bump coverage from 7.5.1 to 7.5.2
#1108
dependabot[bot]
closed
4 months ago
0
Stop using deprecated Bio.Application
#1107
Donaim
opened
4 months ago
0
Mypy: exclude negative inputs instead of including positive
#1106
Donaim
closed
4 months ago
0
Bump scipy from 1.10.1 to 1.13.1
#1105
dependabot[bot]
closed
3 months ago
1
Implement CSV reading for contig stitcher
#1104
Donaim
closed
4 months ago
0
Bump requests from 2.32.1 to 2.32.2
#1103
dependabot[bot]
closed
4 months ago
1
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