Ramprasad Neethiraj
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b0dba3ee75
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update description
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2022-05-24 16:17:15 +02:00 |
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Ramprasad Neethiraj
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c91947f8a1
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Merge branch 'master' into rhocall
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2022-05-24 16:07:55 +02:00 |
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Mahesh Binzer-Panchal
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9a5d6a815b
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Merge branch 'master' into kat_hist
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2022-05-24 15:46:12 +02:00 |
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SusiJo
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3077e4d34c
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Merge branch 'master' into cnvkit/reference
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2022-05-24 15:00:29 +02:00 |
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SusiJo
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8208140d21
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missing meta.id changed
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2022-05-24 14:59:52 +02:00 |
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SusiJo
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6b425735b9
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Merge remote-tracking branch 'origin/master' into cnvkit/reference
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2022-05-24 14:20:55 +02:00 |
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SusiJo
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749edce069
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add prefix
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2022-05-24 14:20:19 +02:00 |
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Mahesh Binzer-Panchal
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c8ffecfe86
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Merge branch 'master' into kat_hist
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2022-05-24 13:57:45 +02:00 |
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Matthias De Smet
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c51c047b2e
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Merge branch 'master' into update/mosdepth
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2022-05-24 13:50:22 +02:00 |
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Matthias De Smet
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a2a8e09762
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Update modules/mosdepth/main.nf
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2022-05-24 13:45:52 +02:00 |
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Mahesh Binzer-Panchal
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afb5f226e6
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Merge branch 'master' into kat_hist
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2022-05-24 13:06:31 +02:00 |
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Matthias De Smet
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858cbe80c6
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add must fail test
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2022-05-24 12:43:49 +02:00 |
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Matthias De Smet
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7e777c6626
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add error is is provided twice
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2022-05-24 12:25:31 +02:00 |
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Matthias De Smet
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b5850fd471
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add stub
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2022-05-24 12:16:03 +02:00 |
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Harshil Patel
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393f23274d
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Merge branch 'master' into cnvkit/reference
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2022-05-24 11:14:50 +01:00 |
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Harshil Patel
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29a4f112be
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Update main.nf
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2022-05-24 11:14:32 +01:00 |
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Matthias De Smet
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01fb8851c3
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mosdept: cram compatiblility
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2022-05-24 11:47:58 +02:00 |
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Harshil Patel
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ec141dba08
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Merge branch 'master' into umitools
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2022-05-24 09:23:20 +01:00 |
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SusiJo
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5db94ea0ee
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changed tag of module
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2022-05-24 10:17:41 +02:00 |
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Ramprasad Neethiraj
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b4982ff6e3
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Merge branch 'master' into rhocall
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2022-05-24 09:41:30 +02:00 |
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SusiJo
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0f0d555f96
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Merge branch 'master' into cnvkit_reference
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2022-05-24 08:03:44 +02:00 |
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SusiJo
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0708f343de
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Merge branch 'master' into cnvkit_bam
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2022-05-24 07:49:51 +02:00 |
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SusiJo
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50128b0c86
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Merge branch 'master' into cnvkit_reference
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2022-05-24 07:49:44 +02:00 |
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SusiJo
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63c038ad68
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Merge branch 'nf-core:master' into cnvkit_bam
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2022-05-24 07:37:24 +02:00 |
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SusiJo
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b3e2f70651
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Merge branch 'master' into cnvkit/antitarget
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2022-05-24 07:36:07 +02:00 |
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SusiJo
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33a72367c6
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Merge branch 'nf-core:master' into cnvkit_reference
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2022-05-24 07:30:29 +02:00 |
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Harshil Patel
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84f02a08a5
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Update umitools/dedup module to make --output-stats optional
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2022-05-23 22:31:09 +01:00 |
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Sateesh Peri
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da0ead705e
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Merge branch 'master' into update/picard
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2022-05-23 13:38:18 -04:00 |
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SusiJo
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58c5ec2f4e
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rm line
Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
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2022-05-23 18:53:28 +02:00 |
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SusiJo
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86b5951c14
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rm line
Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
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2022-05-23 18:48:30 +02:00 |
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SusiJo
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24905e26e2
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rm line
Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
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2022-05-23 18:48:13 +02:00 |
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SusiJo
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ddb964a4bf
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rm line
Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
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2022-05-23 18:48:04 +02:00 |
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SusiJo
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bbee9e3c3b
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add new module cnvkit/reference
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2022-05-23 18:35:50 +02:00 |
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SusiJo
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5d5eacee63
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Merge branch 'nf-core:master' into cnvkit/antitarget
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2022-05-23 16:52:33 +02:00 |
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SusiJo
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4f9d672e55
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added new module cnvkit/antitarget
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2022-05-23 16:52:06 +02:00 |
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FriederikeHanssen
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754afa9ff3
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Merge branch 'master' into gatk_filter
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2022-05-23 15:37:44 +02:00 |
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Ramprasad Neethiraj
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9fb327fec7
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Merge branch 'master' of https://github.com/nf-core/modules into rhocall
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2022-05-23 13:06:00 +02:00 |
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Rike
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175ea9b7f9
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fix version
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2022-05-23 12:15:33 +02:00 |
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SusiJo
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fd31f64266
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Merge branch 'master' into cnvkit_bam
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2022-05-23 11:31:56 +02:00 |
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Mahesh Binzer-Panchal
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e06fb752c3
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Merge branch 'master' into kat_hist
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2022-05-23 08:52:13 +02:00 |
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Rike
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5d72500d60
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remove variables used for test data generation, add tbi
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2022-05-22 13:34:56 +02:00 |
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Matthias De Smet
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c390385cf5
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revert wgsmetrics'
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2022-05-22 06:44:17 +02:00 |
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Matthias De Smet
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d6a0238cd1
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Merge branch 'master' into update/picard
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2022-05-21 08:34:33 +02:00 |
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Matthias De Smet
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a5a6973fcf
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picard: make reference sequence optional
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2022-05-21 08:33:49 +02:00 |
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Ramprasad Neethiraj
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635edc0022
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fix typo
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2022-05-20 17:07:42 +02:00 |
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Ramprasad Neethiraj
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2542c9d176
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add tests
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2022-05-20 16:46:19 +02:00 |
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Mahesh Binzer-Panchal
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2926ec0abb
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Add mash screen
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2022-05-20 13:23:11 +00:00 |
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Ramprasad Neethiraj
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c70b169f61
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create modules
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2022-05-20 13:34:54 +02:00 |
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SusiJo
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9096be5464
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improve readability
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2022-05-20 13:29:49 +02:00 |
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SusiJo
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bdf222649d
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remove unnecessary if statement
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2022-05-20 13:25:57 +02:00 |
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SusiJo
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153c900d0e
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refine comment
Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
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2022-05-20 13:08:38 +02:00 |
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SusiJo
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2e5aa0dbb4
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refine comment
Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
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2022-05-20 13:08:26 +02:00 |
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SusiJo
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3b3921cfa3
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refine comment
Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
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2022-05-20 13:07:57 +02:00 |
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SusiJo
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f392c4bed5
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removed params section & added description fasta
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2022-05-20 13:05:43 +02:00 |
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SusiJo
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129270d7bc
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adjusted conda env & singularity container
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2022-05-20 10:37:46 +02:00 |
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SusiJo
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dd2f48810a
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Merge branch 'nf-core:master' into cnvkit_bam
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2022-05-20 09:14:21 +02:00 |
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SusiJo
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5a1297cc7d
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added optional pdf/png outputs
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2022-05-20 09:12:47 +02:00 |
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SusiJo
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064712c4ea
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added cram_bam conversion & tumor_only check
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2022-05-20 09:11:45 +02:00 |
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Rike
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bb3e64647b
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Merge remote-tracking branch 'origin/master' into gatk_filter
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2022-05-18 15:52:47 +02:00 |
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FriederikeHanssen
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44e9cf56fa
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Merge branch 'master' into gatk_cnnscore
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2022-05-18 15:32:36 +02:00 |
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Rike
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e8221cf98e
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Merge remote-tracking branch 'origin' into gatk_cnnscore
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2022-05-18 14:27:25 +02:00 |
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Rike
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10840a0562
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Conda not suported
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2022-05-18 14:26:21 +02:00 |
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James A. Fellows Yates
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965fabdd54
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Merge branch 'master' into motus_profile
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2022-05-18 11:25:48 +01:00 |
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Rike
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5ae757121f
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Add indices and meta
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2022-05-17 23:38:26 +02:00 |
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Rike
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05837a011d
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Add comment
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2022-05-17 23:06:52 +02:00 |
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Rike
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15fba1dd7c
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add filter variant tranches
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2022-05-17 23:01:24 +02:00 |
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Rike
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e0fcbb428d
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Add CNNScoreVariants
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2022-05-17 19:09:46 +02:00 |
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Jose Espinosa-Carrasco
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3614c19206
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Merge branch 'master' into biobambam/bammerge
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2022-05-17 15:07:37 +02:00 |
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Nicolas Vannieuwkerke
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6342f5b099
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added bedtools split
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2022-05-17 14:24:32 +02:00 |
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Matthias De Smet
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f48790a728
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replace regex with fixed extensions
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2022-05-17 09:54:06 +02:00 |
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Matthias De Smet
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94733a85c0
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Update modules/biobambam/bammerge/main.nf
Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se>
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2022-05-17 09:46:19 +02:00 |
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Matthias De Smet
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d3ddc2221a
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Merge branch 'master' into biobambam/bammerge
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2022-05-17 08:26:28 +02:00 |
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Matthias De Smet
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6be91ce82d
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fix optional output detection
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2022-05-17 08:20:47 +02:00 |
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Subazini TK
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79c2c529fc
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Merge branch 'master' into hmtnote
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2022-05-17 08:05:47 +02:00 |
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JIANHONG OU
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671bacb6df
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Merge branch 'master' into motus_profile
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2022-05-16 17:34:49 -04:00 |
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Matthias De Smet
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d0db186e84
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Merge branch 'master' into biobambam/bammerge
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2022-05-16 20:52:48 +02:00 |
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Matthias De Smet
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a79b9adeee
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address review comments
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2022-05-16 20:51:39 +02:00 |
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Subazini TK
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00204fa82b
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Update main.nf
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2022-05-16 15:20:15 +00:00 |
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Subazini TK
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a0b46d3f03
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Update meta.yml
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2022-05-16 15:20:15 +00:00 |
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Subazini TK
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eaf81f6835
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Update meta.yml
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2022-05-16 15:20:15 +00:00 |
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Subazini TK
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1c42c97504
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Update meta.yml
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2022-05-16 15:20:15 +00:00 |
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Subazini TK
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8b4c5742c9
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Update main.nf
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2022-05-16 15:20:15 +00:00 |
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Subazini TK
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2a15bc2ac0
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Update main.nf
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2022-05-16 15:20:15 +00:00 |
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Subazini TK
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78dc1af1e6
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Update main.nf
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2022-05-16 15:20:15 +00:00 |
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sysbiocoder
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26f026683b
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hmtnote
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2022-05-16 15:20:15 +00:00 |
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sysbiocoder
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31fc8b560f
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hmtnote
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2022-05-16 15:20:15 +00:00 |
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Veit Schwämmle
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85345e5f61
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Merge branch 'master' into maxquant
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2022-05-16 16:06:32 +02:00 |
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Praveen Raj S
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df2620cfc7
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Merge branch 'master' into process_lable_markdup
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2022-05-16 15:53:26 +02:00 |
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Matthias De Smet
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98f204fd1f
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Update modules/biobambam/bammerge/main.nf
Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se>
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2022-05-16 15:13:54 +02:00 |
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Matthias De Smet
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cdbe648400
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align
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2022-05-16 14:44:32 +02:00 |
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Matthias De Smet
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2cca156fed
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linting
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2022-05-16 14:42:34 +02:00 |
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Matthias De Smet
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af69ea749d
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add module: biobambam/bammerge
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2022-05-16 14:39:58 +02:00 |
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veitveit
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12815af53e
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ran prettier
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2022-05-16 14:30:40 +02:00 |
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Veit Schwämmle
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74a1c1400e
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Merge branch 'master' into maxquant
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2022-05-16 13:26:35 +02:00 |
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Jasmin F
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982c9183fa
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Merge branch 'master' into antismashlite
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2022-05-16 11:42:44 +02:00 |
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Jasmin F
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adcfae6cd4
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Merge branch 'master' into antismashlite
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2022-05-16 10:38:01 +02:00 |
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Rike
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ba14355891
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revert markduplciatespark changes
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2022-05-16 09:54:40 +02:00 |
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FriederikeHanssen
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8b4d021189
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Merge branch 'master' into gatk_426
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2022-05-16 09:50:13 +02:00 |
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JIANHONG OU
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fadb83cf44
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Merge branch 'master' into motus_profile
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2022-05-13 09:30:20 -04:00 |
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Matthias De Smet
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cbc47767f7
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add sort option to bowtie2
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2022-05-13 15:26:41 +02:00 |
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