20 commits

Author	SHA1	Message	Date
Phil Ewels	2fee617b5b	Update tools/bowtie2/main.nf	2020-07-11 13:27:05 +02:00
Phil Ewels	ccea438b49	Update tools/bowtie2/main.nf	2020-07-11 13:26:50 +02:00
FelixKrueger	a526551300	Added Bowtie2 module and test workflow	2020-03-19 18:13:15 +00:00
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	5fbde1c69d	Fix trim galore process name	2019-12-06 11:24:07 +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	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	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	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