James A. Fellows Yates
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ea76a97d99
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Merge branch 'dev' into post-patch-update
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1 year ago |
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James Fellows Yates
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2263d96e73
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Merge remote-tracking branch 'origin/master' into post-patch-update
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1 year ago |
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James A. Fellows Yates
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e8b85d0b62
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Update nextflow.config
Co-authored-by: Sofia Stamouli <91951607+sofstam@users.noreply.github.com>
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1 year ago |
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James Fellows Yates
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c0897ecc78
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Bump version to 1.0.1
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1 year ago |
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James A. Fellows Yates
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bca6e645a8
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Merge branch 'dev' into nf-core-template-merge-2.8
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1 year ago |
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nf-core-bot
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ac60d66956
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Template update for nf-core/tools version 2.8
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1 year ago |
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Moritz E. Beber
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70dd7cade9
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feat: introduce sample batches for krakenuniq
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1 year ago |
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James A. Fellows Yates
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9fa458f381
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Merge pull request #279 from nf-core/manifest-update
Reduce authors to main + other contributors
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1 year ago |
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James A. Fellows Yates
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1eeeb8a214
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Reduce authors to main + other contributors
Due to tower limitation producing ugly warning
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1 year ago |
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James Fellows Yates
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6895e45768
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Fix a few conditional bugs and related
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1 year ago |
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James Fellows Yates
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3b90064ba4
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Start adding conditions in modules.conf - non-cat not working
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1 year ago |
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sofstam
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1347f27c11
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Update changelog after release
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1 year ago |
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James A. Fellows Yates
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c3f1adf09b
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First release Zenodo update
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1 year ago |
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James Fellows Yates
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98bc6910d5
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Update authors and remove left over comment
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1 year ago |
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James A. Fellows Yates
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f0f89eb082
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Apply suggestions from code review
Co-authored-by: Sofia Stamouli <91951607+sofstam@users.noreply.github.com>
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1 year ago |
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James A. Fellows Yates
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c66c67524c
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Update nextflow.config
Co-authored-by: Sofia Stamouli <91951607+sofstam@users.noreply.github.com>
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1 year ago |
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James A. Fellows Yates
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6c2ce4a1c9
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Apply suggestions from code review
Co-authored-by: Sofia Stamouli <91951607+sofstam@users.noreply.github.com>
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1 year ago |
|
James Fellows Yates
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aedf0b34de
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Bump version for release
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1 year ago |
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James Fellows Yates
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5c549e5ce3
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Remove TODOs and references to under development
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1 year ago |
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Sofia Stamouli
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69430ef851
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Update nextflow.config
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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1 year ago |
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sofstam
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2f0c68a833
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Last review suggestions
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1 year ago |
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sofstam
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e18e68faa5
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Apply review suggestion
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1 year ago |
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sofstam
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5dc3cbc278
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Rename taxonomy argument
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1 year ago |
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sofstam
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5a6fcf1f42
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Update taxpasta/merge to version 0.2.0 and add taxonomy argument
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1 year ago |
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sofstam
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04bc978ef6
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Remove taxonomy parameter from taxpasta
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1 year ago |
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sofstam
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f0aa89cb87
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Rename taxpasta parameters and remove samplesheet parameter
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1 year ago |
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sofstam
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25d44c955e
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Merge dev into add_taxpasta_merge
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1 year ago |
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sofstam
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de6a4214ef
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Add taxpasta_merge to taxprofiler
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1 year ago |
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James Fellows Yates
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059cd17114
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Fix exporting of mapped/unmapped reads for consistency across both short and long reads
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1 year ago |
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James A. Fellows Yates
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1279437aa1
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Apply suggestions from code review
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1 year ago |
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Sofia Stamouli
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d691b89727
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Merge branch 'dev' into nf-core-template-merge-2.7.2
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1 year ago |
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nf-core-bot
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ab591e01ff
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Template update for nf-core/tools version 2.7.2
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1 year ago |
|
James Fellows Yates
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4b68e95770
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Revert PEP validation back to python samplesheet check
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1 year ago |
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James Fellows Yates
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1ccd0a0767
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Merge branch 'dev' into nf-core-template-merge-2.7.1
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1 year ago |
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nf-core-bot
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36f3b5723b
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Template update for nf-core/tools version 2.7.1
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1 year ago |
|
James Fellows Yates
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3dba6405c5
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Sets correct default for --shortread_qc_mergepairs
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1 year ago |
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Moritz E. Beber
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4529e7e545
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refactor: change parameter exclude unmerged to include
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1 year ago |
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sofstam
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6d140c683a
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Merge branch 'dev' into update_motus
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1 year ago |
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sofstam
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38a818fd17
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Apply review suggestions
|
1 year ago |
|
sofstam
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e5bb627402
|
Apply review suggestions
|
1 year ago |
|
James Fellows Yates
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bc98f5b80f
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Separate KrakenUniq test run
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1 year ago |
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James A. Fellows Yates
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4f6eb6fd75
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Merge pull request #153 from mjamy/add-krakenuniq-module
Add krakenuniq module
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1 year ago |
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sofstam
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933b820c19
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Apply review suggestions
|
1 year ago |
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sofstam
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49af33f68e
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Include NCBI_id, read counts and mgc arguments in motus
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1 year ago |
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James Fellows Yates
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c5e5696f84
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Fix parameter name
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2 years ago |
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James Fellows Yates
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21a76c2449
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Fix cardinality issue
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2 years ago |
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James A. Fellows Yates
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1f31f88635
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Merge pull request #158 from nf-core/adapterremoval-fix
Fix adapterremoval adapter conflict and add optional adapter list file
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2 years ago |
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James A. Fellows Yates
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62f45c8be7
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Update nextflow.config
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2 years ago |
|
Mahwash Jamy
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febcbfc057
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add missing parameters to nextflow.config
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2 years ago |
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Moritz E. Beber
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bf89525bc2
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Merge pull request #146 from nf-core/feat-bracken
add Bracken to the profiling workflow
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2 years ago |