James Fellows Yates
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25bcc0798d
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Start work on multiQC config with distinguishing Kraken/Centrifuge
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2022-07-27 14:40:17 +02:00 |
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nf-core-bot
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a3bcf8665a
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[automated] Fix linting with Prettier
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2022-07-26 18:47:40 +00:00 |
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James A. Fellows Yates
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65ae82efc4
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Define separte krakena nd centrigfue modules
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2022-07-26 18:37:33 +00:00 |
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James A. Fellows Yates
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9d2be68fb8
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Merge branch 'dev' into centrifuge_mqc
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2022-07-26 18:01:30 +00:00 |
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James A. Fellows Yates
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1ef0975736
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Merge branch 'dev' into porechop-log
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2022-07-26 18:00:28 +00:00 |
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James A. Fellows Yates
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fdd9a3bc4d
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Merge pull request #107 from nf-core/fix-multiqc-mixing
Fix MultiQC mixing
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2022-07-26 12:38:52 +02:00 |
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James A. Fellows Yates
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65b0af9a8b
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Fix profiling channels
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2022-07-26 08:53:43 +00:00 |
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James A. Fellows Yates
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3054dea7c2
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Get multiqc input working
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2022-07-26 08:41:06 +00:00 |
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James A. Fellows Yates
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e76b299705
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Start working getting kraken and centrifuge working in MQC
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2022-07-26 08:18:54 +00:00 |
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James Fellows Yates
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139cf0d6aa
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Fix
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2022-07-26 10:12:33 +02:00 |
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James A. Fellows Yates
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64f01fcfe0
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Merge branch 'dev' into porechop-log
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2022-07-20 14:05:23 +02:00 |
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Sofia Stamouli
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1fe9c133f1
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Merge pull request #103 from genomic-medicine-sweden/update_filtlong
Update the dev branch with the filtlong update
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2022-07-20 10:44:52 +02:00 |
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James Fellows Yates
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255afee4c7
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Re-add the collects
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2022-07-19 17:10:10 +02:00 |
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Mahwash Jamy
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811ded38af
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Update subworkflows/local/profiling.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2022-07-19 16:44:48 +02:00 |
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Sofia Stamouli
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237e9aa623
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Update longread_preprocessing.nf
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2022-07-19 16:44:08 +02:00 |
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James A. Fellows Yates
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8d7ddb5847
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Apply suggestions from code review
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2022-07-19 16:30:13 +02:00 |
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mjamy
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c4c82212e1
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incorporate diamond log file into multiqc channel
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2022-07-19 14:12:16 +02:00 |
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sofstam
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171258d545
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Fix typos
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2022-07-19 14:07:13 +02:00 |
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sofstam
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25bc01f9c4
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Fix typos
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2022-07-19 14:04:49 +02:00 |
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sofstam
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8147dba0b4
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Fix typos
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2022-07-19 14:03:10 +02:00 |
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sofstam
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526ed79763
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Fix filtlong logs
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2022-07-19 14:01:11 +02:00 |
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sofstam
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1ba6a08135
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Seperate multiqc for filtlong
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2022-07-19 13:53:29 +02:00 |
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James Fellows Yates
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33a5402b25
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Add emitting porechop logs to multiqc and fix collection of others
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2022-07-19 13:50:39 +02:00 |
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sofstam
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3f5fa8cc7a
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Merge branch 'dev' into update_filtlong
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2022-07-19 13:50:28 +02:00 |
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James A. Fellows Yates
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6f269a8245
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Merge pull request #101 from nf-core/motus/merge
Add motus/merge and biom support
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2022-07-19 13:41:51 +02:00 |
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mjamy
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035b4b7a17
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Update the dev branch with the DIAMOND module update
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2022-07-15 16:28:07 +02:00 |
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sofstam
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5a2fd260fd
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Log file into multiqc channel
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2022-07-15 12:50:50 +02:00 |
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James Fellows Yates
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d83c747533
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Fix modules JSON
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2022-07-15 12:38:20 +02:00 |
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James A. Fellows Yates
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c215ed5607
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Merge branch 'dev' into motus/merge
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2022-07-15 10:52:42 +02:00 |
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James A. Fellows Yates
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cc3967a3fd
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Apply suggestions from code review
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2022-07-15 10:51:41 +02:00 |
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sofstam
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6b00360ff5
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Merge branch 'dev' into update_filtlong
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2022-07-15 10:05:43 +02:00 |
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James A. Fellows Yates
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d7ca3df160
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Merge pull request #104 from nf-core/motus-profile-update
Update mOTUs profile module and mix log for multiqc
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2022-07-14 16:03:01 +02:00 |
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James Fellows Yates
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449b6a5553
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Fix file name output clashing wiht multiqc
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2022-07-13 15:25:58 +02:00 |
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James Fellows Yates
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31119f83c2
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Send to MQC only the log file not the meta
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2022-07-13 14:29:47 +02:00 |
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James Fellows Yates
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13280e2468
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Fix .empty
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2022-07-13 12:44:44 +02:00 |
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James Fellows Yates
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eaa69b65d8
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Update mOTUs profile module and mix log for multiqc
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2022-07-13 12:38:30 +02:00 |
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James Fellows Yates
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c22946cfab
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Fix motu versions not being exported if not run
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2022-07-13 12:36:29 +02:00 |
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sofstam
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1fbe241d27
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Update filtlong module
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2022-07-12 17:43:52 +02:00 |
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sofstam
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4a316df209
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Update the dev branch with the filtlong update
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2022-07-12 17:15:36 +02:00 |
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James Fellows Yates
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d8c0e9e7fe
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Prettier
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2022-07-12 11:41:07 +02:00 |
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James Fellows Yates
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a0ee82bf43
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Add motus/merge and biom support
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2022-07-12 11:39:26 +02:00 |
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James A. Fellows Yates
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8082c7d108
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Merge pull request #97 from nf-core/malt-to-krona
Add Krona support for MALT
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2022-07-05 15:17:52 +02:00 |
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James A. Fellows Yates
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1eba859bf8
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Merge pull request #82 from jianhong/motus
add motus profile.
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2022-07-04 14:16:12 +02:00 |
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James A. Fellows Yates
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26e31c782d
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Merge branch 'dev' into motus
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2022-07-04 13:14:42 +02:00 |
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James Fellows Yates
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447b8f0905
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Get fixed Krona module and add Krona taxonomy to test profile
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2022-07-01 17:21:19 +02:00 |
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James Fellows Yates
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97e6cdf4b4
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Add Krona taxonomy DB to schema build
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2022-06-30 18:36:13 +02:00 |
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James Fellows Yates
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02c06b9f7b
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Add support for MALT display in Krona, tweaks other krona modules to dispaly tool name in output file
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2022-06-30 18:33:11 +02:00 |
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James Fellows Yates
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27f174d17e
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Merge remote-tracking branch 'origin/dev' into malt-to-krona
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2022-06-30 12:01:33 +02:00 |
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James Fellows Yates
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0050f45345
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Add taxonomy directory param
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2022-06-30 11:43:52 +02:00 |
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James A. Fellows Yates
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913080a5b1
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Merge pull request #96 from MillironX/feature/kaiju2krona
Add Krona output for Kaiju profiles
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2022-06-29 09:27:25 +02:00 |
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