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theiagen
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public_health_bacterial_genomics
GNU Affero General Public License v3.0
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update readme
#232
sage-wright
closed
1 year ago
0
update readme
#231
sage-wright
closed
1 year ago
0
Updated task description
#230
emmadoughty
closed
1 year ago
0
update version task to "PHBG v1.3.0"
#229
kapsakcj
closed
1 year ago
0
Amendment to Vibrio subworkflow
#228
emmadoughty
closed
1 year ago
0
Amendment to Vibrio sub-workflow
#227
emmadoughty
closed
1 year ago
0
Characterization of samples with large deletions in key genes as resistant
#226
frankambrosio3
opened
1 year ago
0
Update TheiaProk with tb_gene_coverage task
#225
cimendes
closed
1 year ago
1
add missing tbprofiler optional outputs to export_taxon_tables inputs
#224
cimendes
closed
1 year ago
0
Update version to v1.2.0
#223
sage-wright
closed
1 year ago
0
Add comma
#222
sage-wright
closed
1 year ago
0
Update tbprofiler with conditional additional outputs
#221
cimendes
closed
1 year ago
0
Update README.md
#220
kevinlibuit
closed
1 year ago
0
update default kleborate docker to v2.3.2
#219
kapsakcj
opened
1 year ago
0
add agrvate to S. aureus subwf pull request
#218
kapsakcj
closed
1 year ago
4
New output columns from TBProfiler Task
#217
cimendes
closed
1 year ago
1
Incorporate vibrio characterisation with srst2 into TheiaProk workflows
#216
cimendes
closed
1 year ago
3
output kraken2 database used for analysis
#215
kapsakcj
opened
1 year ago
0
task_cg_pipeline.wdl: python3 command not found with new lyveset Docker
#214
sam-baird
closed
1 year ago
2
Adds Staph aureus subwf
#213
kapsakcj
closed
1 year ago
4
Add S. aureus spatyper to Theiaprok_Illumina_PE and Theiaprok_Illumina_SE
#212
cimendes
closed
1 year ago
2
Add neisseria subwf: ngmaster and meningotype
#211
kapsakcj
closed
1 year ago
4
amrfinderplus improvements
#210
kapsakcj
opened
1 year ago
2
mlst: new String output "ts_mlst_allelic_profile"
#209
kapsakcj
closed
1 year ago
3
Add abritAMR for optional AMR detection
#208
michellescribner
opened
1 year ago
0
TheiaProk_FASTA
#207
frankambrosio3
closed
1 year ago
0
Add BUSCO contamination to qc_check task
#206
michellescribner
opened
1 year ago
0
Request for Neisseria typing
#205
michellescribner
closed
1 year ago
3
Update task_amrfinderplus.wdl
#204
kevinlibuit
closed
1 year ago
1
Visualise set-level workflow results against a phylogeny
#203
emmadoughty
closed
1 year ago
0
add optional task for shigeifinder w/ reads as input; update default docker for both shigeifinder & shigatyper
#202
kapsakcj
closed
1 year ago
1
Fja readlength dev
#201
frankambrosio3
closed
1 year ago
4
Re-root phylogenies
#200
emmadoughty
closed
1 year ago
0
ideas for improving read screen workflow (pre-assembly)
#199
kapsakcj
closed
1 year ago
0
reorder snp matrix
#198
sage-wright
closed
1 year ago
9
Mean read length and q to workflow level
#197
michellescribner
closed
1 year ago
0
Add kleborate virulence score output for TheiaProk
#196
frankambrosio3
opened
1 year ago
0
Update PHBG to v1.1.0
#195
michellescribner
closed
1 year ago
0
update PHBG version
#194
michellescribner
closed
1 year ago
0
add seroba outputs to SE
#193
sage-wright
closed
1 year ago
3
ordered bbduk
#192
sage-wright
closed
1 year ago
0
add ordered=t to bbduk task
#191
sage-wright
closed
1 year ago
1
Reformat task directory
#190
kevinlibuit
closed
1 year ago
1
fix file extension awareness cg_pipeline
#189
michellescribner
closed
1 year ago
0
Export Taxon Table Fix and others
#188
sage-wright
closed
1 year ago
0
inconsistent naming in use_prokka
#187
michellescribner
closed
1 year ago
0
MLST novel alleles
#186
emmadoughty
closed
1 year ago
0
Generate gene_presence_absence.csv with pirate task
#185
HNHalstead
closed
1 year ago
0
Revert default read trimming parameters to v1.0
#184
michellescribner
closed
1 year ago
0
add optional input to merlin_magic wf for skipping serotypefinder and specify docker image
#183
kapsakcj
closed
1 year ago
3
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