37 commits

Author	SHA1	Message	Date
Chris Cheshire	0da0f15998	luslab-umitools | Dropped process_name param	2020-06-26 09:06:37 +01:00
Chris Cheshire	afb1adebb6	luslab-umitools | Added index output from module	2020-06-26 09:04:15 +01:00
Chris Cheshire	3e26c218c2	luslab-umitools | Combined bam/bai into single channel + clean up	2020-06-26 08:36:11 +01:00
Chris Cheshire	cb58bea33f	luslab-umitools | Changed all tabs to 4-space	2020-06-26 08:23:16 +01:00
Chris Cheshire	a905c05147	luslab-umitools | Changed all tabs to 4-space	2020-06-26 08:22:43 +01:00
Chris Cheshire	16c9c12eee	luslab-umitools | Changed from shell to script inline with best practice	2020-06-26 08:19:54 +01:00
Chris Cheshire	723279c25e	luslab-umitools | Simplified docker file	2020-06-26 08:17:45 +01:00
Chris Cheshire	0f5da3bd99	review-correction | Add channels back into file ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-06-23 09:39:46 +01:00
Chris Cheshire	aeec856fe1	review-correction | Docker file update ... Co-authored-by: Phil Ewels <phil.ewels@scilifelab.se>	2020-06-23 09:38:09 +01:00
Chris Cheshire	fc8bc4675d	review-correction | Variable name change ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-06-23 09:34:57 +01:00
Chris Cheshire	cdd50fdf7d	review-correction | Variable name change ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-06-23 09:34:47 +01:00
Chris Cheshire	58d345fe81	luslab-umitools | Cleanup for submission	2020-06-19 15:55:45 +01:00
Chris Cheshire	961d12275a	luslab-umitools | Cleaned dependancy file	2020-06-19 08:22:37 +01:00
Chris Cheshire	9945ac88e0	luslab-umitools | Module feature complete	2020-06-19 08:21:55 +01:00
Chris Cheshire	436d6a6292	luslab-umitools | Updating module definition	2020-06-18 16:54:14 +01:00
Chris Cheshire	1cbfd0d125	luslab-umitools | Changed sample file names	2020-06-18 16:14:26 +01:00
Chris Cheshire	ceb1a6ef1a	luslab-umitools | Cleaned up sample file names	2020-06-18 15:44:27 +01:00
Chris Cheshire	9092ae8c01	luslab-umitools | Cleaned up docker files and removed groovy dependancy	2020-06-18 15:40:24 +01:00
Candice	6ecf54d73c	luslab-umitools | Added SAM/BAM options and group/dedup options	2020-06-04 17:01:46 +02:00
Candice	c5e958cc4f	luslab-umitools | Added Nextflow config file	2020-06-04 17:00:25 +02:00
Candice	064bd11ebf	luslab-umitools | Added single-cell RNA-seq options and grouping option	2020-06-03 18:41:34 +02:00
Candice	1508596f14	luslab-umitools | Edited Dockerfile in umi_tools	2020-06-03 18:41:34 +02:00
Candice	07b485eeec	luslab-umitools | Minor corrections to main.nf in umi_tools/dedup	2020-06-02 19:05:08 +02:00
Candice	08d26794b5	luslab-umitools | Created yml file for dedup in umi_tools	2020-06-02 19:02:18 +02:00
Candice	3aace7c0c2	luslab-umitools | Added sample_id options in dedup	2020-06-02 18:45:55 +02:00
Candice	6970d25b59	luslab-umitools | Added basic options to dedup tool in umi_tools	2020-06-02 17:23:54 +02:00
Candice	4656667374	luslab-umitools | Renamed params and changed relative paths	2020-06-01 16:41:47 +02:00
Candice	ff0265fda4	luslab-umitools | Added input folder in dedup/test	2020-06-01 16:21:29 +02:00
Candice	e46db6d31d	luslab-umitools | Created conda environment for umi_tools	2020-06-01 16:14:13 +02:00
Candice	5f82d0a702	luslab-umitools | Customized Dockerfile for umi_tools	2020-06-01 16:13:30 +02:00
Candice	7cc1319801	luslab-umitools | Renamed dedup.nf to main.nf	2020-06-01 15:18:49 +02:00
Candice	e00b7bd91e	luslab-umitools | Added parameter overriding function to umi_tools	2020-06-01 15:02:21 +02:00
Candice	549f81e4ea	luslab-umitools | Created a Dockerfile for umi_tools module	2020-06-01 14:52:43 +02:00
Candice	bfdccfe1b9	luslab-umitools | Initialized test.nf	2020-06-01 14:40:50 +02:00
Candice	ab2d819df3	luslab-umitools | Renamed umi-tools.nf to dedup.nf	2020-06-01 14:40:50 +02:00
Candice	ff243acf63	luslab-umitools | Created umitool.nf file in the dedup folder	2020-06-01 14:40:50 +02:00
Candice	baa5805350	luslab-umitools | Created test.nf and test folder in umi_tools/dedup	2020-06-01 14:40:50 +02:00