Anders Goncalves da Silva
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7cae9b1842
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Add gff to meta yaml
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2021-02-15 20:49:37 -08:00 |
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Anders Goncalves da Silva
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26189f4132
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Change ternary expressions back to traditional format
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-15 19:56:22 -08:00 |
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Anders Goncalves da Silva
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4f8ab8bd69
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Rename gff to features
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-15 19:53:30 -08:00 |
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Anders Goncalves da Silva
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8c483d4c6a
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Add gff as input for proper staging
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-15 19:53:13 -08:00 |
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Anders Goncalves da Silva
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6259b72081
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Fix output format
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-15 19:52:30 -08:00 |
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Anders Goncalves da Silva
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ef1e1b2539
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Fix indentation
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-15 19:51:45 -08:00 |
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Anders Goncalves da Silva
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f841483a70
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Fix URL for containers
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2021-02-15 13:23:35 -08:00 |
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Anders Goncalves da Silva
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e8d1171b5d
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Make gff a param and not an optional input
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2021-02-15 11:50:52 -08:00 |
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Anders Goncalves da Silva
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9e3c4e598c
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Add meta to ivar variants
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2021-02-15 09:29:10 -08:00 |
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Anders Goncalves da Silva
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2fe3210f88
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Add ivar variants
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2021-02-15 09:27:59 -08:00 |
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Harshil Patel
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4af9417b6d
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Update software/ivar/trim/main.nf
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2021-02-13 08:20:06 +00:00 |
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Harshil Patel
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a5686ed14e
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Update software/ivar/trim/main.nf
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2021-02-13 08:19:55 +00:00 |
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Harshil Patel
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25f3d46f68
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Update software/ivar/trim/meta.yml
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2021-02-13 08:17:03 +00:00 |
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Anders Goncalves da Silva
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bbdca4fa76
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Fix output files
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2021-02-12 16:14:46 -08:00 |
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Anders Goncalves da Silva
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7c9766962d
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Add ivar trim meta.yml
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2021-02-12 16:02:48 -08:00 |
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Anders Goncalves da Silva
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6dca7799e6
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Add ivar trim
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2021-02-12 16:02:10 -08:00 |
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Anders Goncalves da Silva
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9268851cde
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Remove samtools option
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-12 15:09:50 -08:00 |
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Anders Goncalves da Silva
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1f66954180
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Relabel input parameter
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-12 15:09:35 -08:00 |
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Harshil Patel
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0580fd8ded
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Update software/ivar/consensus/main.nf
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2021-02-12 23:02:04 +00:00 |
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Harshil Patel
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9e4539473e
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Update software/ivar/consensus/main.nf
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2021-02-12 23:01:53 +00:00 |
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Harshil Patel
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bc5e073cdb
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Update software/ivar/consensus/main.nf
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2021-02-12 22:57:06 +00:00 |
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Anders Goncalves da Silva
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cb19c7b056
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Fix trailing whitespace
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2021-02-12 14:46:13 -08:00 |
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Anders Goncalves da Silva
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b08bf1ea5c
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Remove ref to conda build and additional params
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2021-02-12 14:43:50 -08:00 |
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Anders Goncalves da Silva
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bfc13d3379
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Add options to make samtools more flexible
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2021-02-12 11:50:33 -08:00 |
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Anders Goncalves da Silva
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a4bba006bd
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Add reference fasta as input
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2021-02-12 11:26:55 -08:00 |
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Anders Goncalves da Silva
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6b22bb9782
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Add meta.yml
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2021-02-12 11:25:40 -08:00 |
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Anders Goncalves da Silva
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e9aa037e7b
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Add function to enable output of mpileup
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 10:02:06 -08:00 |
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Anders Goncalves da Silva
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06770d5f02
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Specify the exact bioconda recipe build
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 10:01:25 -08:00 |
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Anders Goncalves da Silva
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362a630f8b
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Change suffix of mpileup ouput file
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 10:00:54 -08:00 |
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Anders Goncalves da Silva
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884c4658b8
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Make mpileup saving optional
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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2021-02-10 10:00:22 -08:00 |
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Anders Goncalves da Silva
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8f546a1f95
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Add ivar consensus
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2021-02-09 10:26:35 -08:00 |
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