ljmesi
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a821f748ee
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Add modules
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2022-05-03 09:28:46 +02:00 |
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James Fellows Yates
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031cb45934
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Add initial longread QC filtering - requires filtlong module update
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2022-05-01 07:18:14 +02:00 |
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James Fellows Yates
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8126d16dee
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Add draft version of DIAMOND
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2022-04-29 21:59:42 +02:00 |
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sofstam
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d082d67bcb
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Add kaiju2table to taxprofiler
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2022-04-25 17:36:29 +02:00 |
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sofstam
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c00ca1c2b8
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Add centrifuge kreport in taxprofiler
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2022-04-22 15:24:10 +02:00 |
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Sofia Stamouli
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236141f065
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Resolve conflicts with dev
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2022-04-20 10:17:10 +02:00 |
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James A. Fellows Yates
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6fecb3eeb7
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Merge pull request #54 from nf-core/dev
Get upstream changes
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2022-04-16 06:17:33 +02:00 |
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sofstam
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68ce5843a4
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Add kaiju in taxprofiler
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2022-04-13 18:51:56 +02:00 |
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James Fellows Yates
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de57340526
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Start work
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2022-04-13 11:49:35 +02:00 |
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James A. Fellows Yates
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025083061e
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Merge branch 'dev' into hostremoval
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2022-04-11 13:36:03 +02:00 |
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Sofia Stamouli
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fd5ebea9a6
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Remove old centrifuge module
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2022-04-08 10:57:58 +02:00 |
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sofstam
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606e5da7d5
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Check if PR works with centrifuge/centrifuge module
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2022-04-07 16:13:17 +02:00 |
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James A. Fellows Yates
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b554aa3e4d
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Merge branch 'dev' into hostremoval
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2022-04-07 14:00:10 +02:00 |
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James A. Fellows Yates
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23fb319779
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Merge branch 'dev' into complexity-filter-bbduk
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2022-04-05 13:11:15 +02:00 |
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Moritz E. Beber
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c54c32c494
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chore: update adapterremoval
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2022-04-05 10:18:34 +02:00 |
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James A. Fellows Yates
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3d662d2e06
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Merge branch 'dev' into complexity-filter-bbduk
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2022-04-04 21:19:36 +02:00 |
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James Fellows Yates
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a384162810
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Add prinseq as alternative complexity filtering
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2022-04-04 21:16:51 +02:00 |
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sofstam
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d897c922b2
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Add centrifuge classificatioN
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2022-04-04 13:51:51 +02:00 |
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James A. Fellows Yates
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b2e29ea23a
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Merge branch 'dev' into hostremoval
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2022-04-03 17:24:07 +02:00 |
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James Fellows Yates
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066ceb2bca
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Remove flagstat as bowtie2 reports this itself
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2022-04-03 17:23:14 +02:00 |
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James Fellows Yates
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482112bb42
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Start work on host removal
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2022-04-03 07:58:40 +02:00 |
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James Fellows Yates
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b055df5ea0
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Add bbduk complexity (entropy-based) filtering
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2022-04-02 17:02:05 +02:00 |
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Moritz E. Beber
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4d2960c06f
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chore: add metaphlan3 module
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2022-04-02 14:59:44 +02:00 |
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James Fellows Yates
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c4c93bd59d
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Start working on adding adapterremoval
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2022-03-31 15:31:45 +02:00 |
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sofstam
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37a70dc3e3
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Merge branch 'dev' into classification_centrifuge
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2022-03-25 16:18:35 +01:00 |
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James A. Fellows Yates
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edce6603ef
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Merge branch 'dev' into nf-core-template-merge-2.3.2
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2022-03-24 14:10:58 +01:00 |
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sofstam
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3ff54e620e
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Add centrifuge classification
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2022-03-24 13:02:25 +01:00 |
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nf-core-bot
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6b939e6728
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Template update for nf-core/tools version 2.3.1
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2022-03-23 13:57:56 +00:00 |
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James A. Fellows Yates
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3079f16861
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Merge branch 'dev' into database-untar
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2022-03-21 19:55:36 +01:00 |
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James A. Fellows Yates
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631c115e10
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Adds PoC of untarring system
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2022-03-21 14:58:19 +00:00 |
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James Fellows Yates
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c7f022008c
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Start getting database prep ready
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2022-03-21 15:07:59 +01:00 |
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ljmesi
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16be676d72
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Add Porechop module
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2022-03-18 14:34:10 +01:00 |
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James Fellows Yates
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e39c6a8ccb
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Fix MALT multiqc report clash
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2022-03-03 18:04:03 +01:00 |
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James Fellows Yates
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2c183ed2ed
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Add Kraken2 and MALT/run as Proof of Concept (currnetly MQC issue)
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2022-03-03 17:42:02 +01:00 |
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James Fellows Yates
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cf55cc592c
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Get skeleton read processing to input for profiling
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2022-02-18 16:51:01 +01:00 |
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James Fellows Yates
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12e7b428f2
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initial template build from nf-core/tools, version 2.2
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2022-02-18 07:55:14 +01:00 |
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