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Author	SHA1	Message	Date
sruthipsuresh	29639c522f	Corrected sort	2021-01-29 23:17:44 -06:00
sruthipsuresh	70de0331a5	Corrected pytest and config	2021-01-29 23:17:44 -06:00
sruthipsuresh	a108bd407e	Corrected md5sum and output	2021-01-29 23:17:44 -06:00
sruthipsuresh	2f19b4279c	All modules corrected, TODO config	2021-01-29 23:17:44 -06:00
sruthipsuresh	6e7feb9e57	Update main.nf ... Fixed prefix	2021-01-29 23:17:44 -06:00
sruthipsuresh	32564137fd	Corrected workflows and ran editor config	2021-01-29 23:17:44 -06:00
sruthipsuresh	672f94f2af	rebased and updated all bedtools testing and modules	2021-01-29 23:17:44 -06:00
sruthipsuresh	78473edb72	Removed large testing files, will convert to updated testing	2021-01-29 23:17:44 -06:00
sruthipsuresh	4ada27479a	Removed nextflow file	2021-01-29 23:17:44 -06:00
Sruthi Suresh	4fca435120	Fixed naming issues and links in meta.yml	2021-01-29 23:17:44 -06:00
Edmund Miller	178becdd69	style: Run yaml-lint against files	2021-01-29 23:17:44 -06:00
Edmund Miller	b16226c09c	fix(bedtools): Add header param	2021-01-29 23:17:44 -06:00
Sruthi Suresh	a984c1be7c	Added all modules with basic functionality and updated meta.yml files.	2021-01-29 23:17:44 -06:00
Sruthi Suresh	89e5473b44	Updated modules with the changed container format	2021-01-29 23:17:44 -06:00
Sruthi Suresh	6677c98b11	Updated complement and completed slop module with all parameters available.	2021-01-29 23:17:44 -06:00
Sruthi Suresh	199dfc5ea3	Added complement module with necessary test dir/parameters	2021-01-29 23:17:44 -06:00
Sruthi Suresh	709970e9af	Completed slop module for modules with test directory and updated meta.yml file	2021-01-29 23:17:44 -06:00
Sruthi Suresh	5205ce286a	Added all modules using bedtools in the enhancer transcript identification section	2021-01-29 23:17:44 -06:00
Sruthi Suresh	637b545168	Removed extraneous modules and updated removegenes module	2021-01-29 23:17:44 -06:00
Sruthi Suresh	1426d89440	Completed sloprefseq and removegenes modules (main.nf, meta.yml and functiosn.nf file). Also added the test directory with input/output/main.nf files.	2021-01-29 23:17:44 -06:00
Sruthi Suresh	5b2633757e	updated test file and main.nf file	2021-01-29 23:17:44 -06:00
sruthipsuresh	521c87f999	Updated test.mainnf file. ... Added the necessary chrom sizes input and changed test file to directory (as specified in nfcore).	2021-01-29 23:17:44 -06:00
sruthipsuresh	fefbdb9893	Created test file for checking code. ... Still need to add parameters map and chrom sizes path.	2021-01-29 23:17:44 -06:00
Sruthi Suresh	185ca19930	Added module for slopRefseq, including meta.yml, functions and main	2021-01-29 23:17:44 -06:00
Sruthi Suresh	352a48741f	updated test file and main.nf file	2021-01-29 23:17:44 -06:00
Sruthi Suresh	5a997c5ac6	Updated module, need to fix cardinality of tuple	2021-01-29 23:17:44 -06:00
Sruthi Suresh	022b0bfe54	Updated test directory with input files, corrected main.nf and config. Additionally, main.nf for the process was updated.	2021-01-29 23:17:44 -06:00
sruthipsuresh	74f1a62fa4	Corrected errors in naming.	2021-01-29 23:17:44 -06:00
sruthipsuresh	ec6ebe086f	Updated test.mainnf file. ... Added the necessary chrom sizes input and changed test file to directory (as specified in nfcore).	2021-01-29 23:17:44 -06:00
sruthipsuresh	898c0775c6	Main.nf for bedtools module added.	2021-01-29 23:17:44 -06:00
sruthipsuresh	a654c0f5fa	Created fixbedcoordinates functions.nf file	2021-01-29 23:17:44 -06:00
sruthipsuresh	c8f30720a1	Created meta file for the fixbedcoordinates module.	2021-01-29 23:17:44 -06:00
sruthipsuresh	8d6d48f067	Created test file for checking code. ... Still need to add parameters map and chrom sizes path.	2021-01-29 23:17:44 -06:00
sruthipsuresh	5f705f69e1	Fixed version error in bedtools.	2021-01-29 23:17:44 -06:00
sruthipsuresh	fe2e27c793	Update main.nf ... Updated bedtools module with updated container version and upstream/downstream values.	2021-01-29 23:17:44 -06:00
Sruthi Suresh	69f9f1cc89	Updated with removegenes folder (with meta, main and generic function file).	2021-01-29 23:17:44 -06:00
Sruthi Suresh	cfe8a490d8	Added module for slopRefseq, including meta.yml, functions and main	2021-01-29 23:17:44 -06:00
JoseEspinosa	ddbe8055c2	Adding tests	2021-01-29 19:31:33 +01:00
JoseEspinosa	43f9815621	Adding module bowtie2 align	2021-01-29 19:29:32 +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	2f9934c563	Adding bowtie2_build module	2021-01-29 18:57:27 +01:00
JoseEspinosa	720db2bed5	Fixing samtools_mpileup test	2021-01-29 18:21:03 +01:00
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
kevinmenden	34cfc32c29	added quast workflow	2021-01-29 16:15:45 +01:00