237 commits

Author	SHA1	Message	Date
JoseEspinosa	579de3e038	bcftools_tabix generic for any TAB-delimited genome position file	2021-02-01 21:59:39 +01:00
JoseEspinosa	0a8915ae77	Adding bcftools_tabix module	2021-02-01 10:07:35 +01:00
JoseEspinosa	52b0b8094d	Adding bcftools_stats module	2021-02-01 10:03:25 +01:00
JoseEspinosa	0423e686a6	Adding bcftools_isec module	2021-02-01 09:46:24 +01:00
JoseEspinosa	da7598272e	Adding bcftools_filter module	2021-02-01 09:41:08 +01:00
JoseEspinosa	eb12f4610d	Fixing meta ymls	2021-02-01 09:28:51 +01:00
JoseEspinosa	b6ef06c6cd	Add bcftools_consensus module	2021-01-31 22:23:26 +01:00
JoseEspinosa	500481833f	Adding bcftools_bgzip module	2021-01-30 11:22:25 +01:00
Harshil Patel	bd59706d51	Merge pull request #118 from heuermh/dsh-bio ... Added dsh-bio filter-bed as dsh_filterbed	2021-01-29 18:15:24 +00:00
Harshil Patel	7ab3217f16	Update software/dsh/filterbed/main.nf	2021-01-29 18:14:13 +00:00
Harshil Patel	cf5e38f48b	Update software/dsh/filterbed/main.nf	2021-01-29 18:14:08 +00:00
Harshil Patel	0fcbc4233c	Merge pull request #126 from JoseEspinosa/samtools_viralrecon ... Samtools viralrecon	2021-01-29 18:12:48 +00:00
Harshil Patel	eb7a3861db	Update software/samtools/mpileup/meta.yml	2021-01-29 18:12:17 +00:00
JoseEspinosa	13e9f81160	Fixing lint tests	2021-01-29 18:01:58 +01:00
JoseEspinosa	22dcdc692d	Adding samtools_mpileup module	2021-01-29 17:58:42 +01:00
JoseEspinosa	3eedca9bb4	Add samtools_view	2021-01-29 17:18:45 +01:00
Michael L Heuer	d2723408ad	Apply suggestions from code review ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2021-01-29 09:01:21 -06:00
kevinmenden	d30994c6ef	Merge branch 'pangolin-module' of https://github.com/KevinMenden/modules into pangolin-module	2021-01-29 12:54:38 +01:00
kevinmenden	44df90a795	Merge branch 'master' of https://github.com/nf-core/modules into pangolin-module	2021-01-29 12:50:24 +01:00
Harshil Patel	5da41ecb26	Merge pull request #122 from KevinMenden/master ... Added tests and meta.yml files for Salmon	2021-01-29 11:49:03 +00:00
Harshil Patel	59e3e8202b	Update software/pangolin/main.nf	2021-01-29 11:43:42 +00:00
Kevin Menden	afaef3c30d	Apply suggestions from code review ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2021-01-29 12:40:15 +01:00
kevinmenden	a22f430674	updated input description	2021-01-29 12:34:23 +01:00
Kevin Menden	8f2f936cd4	Apply suggestions from code review ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2021-01-29 12:33:37 +01:00
kevinmenden	69a41cadbc	added pangolin module	2021-01-29 11:03:54 +01:00
kevinmenden	0780155dc4	added cutadapt module and tests	2021-01-29 09:33:45 +01:00
kevinmenden	3750bea2dd	fixed typo	2021-01-26 16:18:46 +01:00
kevinmenden	a3185732ff	added meta.yml files	2021-01-26 16:12:41 +01:00
kevinmenden	84355f674d	added optional output files	2021-01-26 13:31:30 +01:00
Kevin Menden	8e2749beb7	Apply suggestions from code review ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2021-01-26 12:46:30 +01:00
kevinmenden	272de7c021	Added meta.yml files for align and genomegenerate	2021-01-25 15:14:57 +01:00
kevinmenden	71e0de733c	adapdted star for mutliple output BAMs	2021-01-25 14:09:03 +01:00
kevinmenden	6444af7b36	star module tests	2021-01-25 09:02:03 +01:00
Michael L Heuer	e6547d5b16	Update dsh-bio version to 2.0	2021-01-22 12:12:56 -06:00
Michael L Heuer	23f9284aae	Added dsh-bio split-bed as dsh_splitbed	2021-01-21 16:34:49 -06:00
Michael L Heuer	eb6408f3dc	Added dsh-bio filter-bed as dsh_filterbed	2021-01-21 15:16:20 -06:00
Harshil Patel	c98f9284a2	Merge pull request #89 from KevinMenden/master ... Add bowtie module	2020-12-18 14:56:29 +00:00
kevinmenden	32f6191ff3	editorconfig	2020-12-18 11:11:19 +01:00
kevinmenden	db0b631906	removed index from test output	2020-12-18 11:06:02 +01:00
kevinmenden	299a3fa07e	adding .index back	2020-12-18 10:58:37 +01:00
kevinmenden	0be13edc52	next try at editorconfig	2020-12-18 09:52:38 +01:00
kevinmenden	07f0a2476a	fixed linting errors	2020-12-18 09:50:05 +01:00
kevinmenden	0eb20c14bf	fixed unaligned output	2020-12-18 09:20:35 +01:00
kevinmenden	1c89c9717b	Merge branch 'master' of https://github.com/KevinMenden/modules	2020-12-18 09:16:17 +01:00
kevinmenden	f840325ead	added unaligned output	2020-12-18 09:14:40 +01:00
Kevin Menden	7805d25cc5	Update software/bowtie/align/meta.yml ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 09:13:48 +01:00
Kevin Menden	a7f1ff29d7	Update software/bowtie/align/meta.yml ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 09:13:42 +01:00
Kevin Menden	dc4108fd9b	Update software/bowtie/align/meta.yml ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 09:13:35 +01:00
Kevin Menden	41329b8982	Apply suggestions from code review ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 08:16:18 +01:00
Edmund Miller	d76638d6f8	style(#77): Fix editorconfig errors	2020-12-17 17:50:24 -06:00