1241 commits

This branch

This branch

All branches

Author	SHA1	Message	Date
JoseEspinosa	17ccbce67b	Update test-datasets with msa data	2020-03-05 17:17:14 +01:00
Jeremy1805	a4836ae3c3	Added tools/bwa/mem	2020-03-05 16:06:25 +00:00
Piotr Faba	97d9ae76f0	add cutadapt module	2020-03-05 15:56:11 +00:00
annacprice	e623dca3b7	initial commit of shovill	2020-03-05 09:29:23 +00:00
MaxUlysse	3e8475baf0	add social preview image	2020-02-12 15:27:56 +01:00
Maxime Garcia	f62fad63ca	Merge pull request #12 from MaxUlysse/dev ... Add some modules	2020-02-10 17:10:35 +01:00
Maxime Garcia	48be154434	Update tools/bwa/index/meta.yml ... Co-Authored-By: Olga Botvinnik <olga.botvinnik@gmail.com>	2020-01-24 10:39:52 +01:00
MaxUlysse	7fbfd2d6cb	add samtools faidx to index fasta file	2020-01-23 11:36:21 +01:00
MaxUlysse	b8dda67338	add htslib tabix to index bgzipped vcf files	2020-01-23 11:35:49 +01:00
MaxUlysse	9db873c3bc	add gatk dict to create dictionnary from fasta file	2020-01-23 11:35:19 +01:00
MaxUlysse	a69aebd01b	fix index process	2020-01-23 10:19:00 +01:00
MaxUlysse	ad3c14a964	fix typo	2020-01-21 11:25:13 +01:00
MaxUlysse	1f46499e3b	add bwa index	2020-01-21 11:24:32 +01:00
Phil Ewels	a88b867498	Merge pull request #10 from ewels/master ... Fix trim galore process name	2019-12-06 11:24:45 +01:00
Phil Ewels	5fbde1c69d	Fix trim galore process name	2019-12-06 11:24:07 +01:00
Phil Ewels	4eb1428931	Added empty test_import.nf file	2019-12-06 10:38:57 +01:00
Maxime Garcia	9fd356468d	Merge pull request #9 from ewels/master ... Added samtools, restructured directory structures	2019-12-06 10:37:42 +01:00
Phil Ewels	c77ea13d35	Fixed FastQC tests with submodule	2019-12-06 10:15:49 +01:00
Phil Ewels	93f7b26aa2	Use submodules for test data	2019-12-06 09:24:33 +01:00
Phil Ewels	36df850298	Added test-datasets as a git submodule	2019-12-06 09:19:00 +01:00
Phil Ewels	51bd2c0277	Ansi log false for tests	2019-12-05 22:20:02 +01:00
Phil Ewels	e2a205c8df	Added nextflow.config files for all	2019-12-05 22:18:33 +01:00
Phil Ewels	eb41e5ebba	FastQC: actually run a test	2019-12-05 22:11:12 +01:00
Phil Ewels	ef486a908b	Use empty dict instead for workflow	2019-12-05 16:09:28 +01:00
Phil Ewels	d682c6f7a8	Workflows: test everything on paths	2019-12-05 16:08:12 +01:00
Phil Ewels	a065ac3532	Actions: install nextflow	2019-12-05 16:03:00 +01:00
Phil Ewels	acc4eb0054	GitHub actions - run nextflow in a docker image	2019-12-05 15:57:32 +01:00
Phil Ewels	af766a9cc7	Added TrimGalore	2019-12-05 15:53:38 +01:00
Phil Ewels	497573fc5d	Refactor GitHub actions workflows	2019-12-05 15:44:10 +01:00
Phil Ewels	8837c2b81d	GitHub actions: paths, not path	2019-12-05 15:39:01 +01:00
Phil Ewels	97fbd32644	Added samtools sort + index ... Added container to FastQC	2019-12-05 15:36:35 +01:00
Phil Ewels	5e4c023edd	Start work on FastQC module files	2019-12-05 15:18:09 +01:00
Phil Ewels	4582ab344c	Add GitHub Actions, put FastQC in to a directory	2019-12-05 14:52:43 +01:00
Harshil Patel	ada7b5f9a3	Merge pull request #5 from ewels/master ... Replace Slack join URL	2019-07-30 15:33:41 +01:00
Phil Ewels	44b6e1250d	Replace Slack join URL	2019-07-30 16:31:44 +02:00
drpatelh	adb9074f55	Typo	2019-07-26 16:06:49 +01:00
drpatelh	56608c0ad4	FastQC prototype with docs	2019-07-26 16:05:13 +01:00
drpatelh	c4456ad334	Fix links	2019-07-26 13:38:08 +01:00
drpatelh	eb9aeea775	Refine README	2019-07-26 13:30:26 +01:00
drpatelh	ef8c13a7d8	Fill out repo	2019-07-26 10:19:07 +01:00
drpatelh	8f5a297705	first commit	2019-07-26 09:54:25 +01:00